timflow 0.2.0__tar.gz → 0.3.0__tar.gz

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 (341) hide show
  1. {timflow-0.2.0 → timflow-0.3.0}/.readthedocs.yaml +3 -4
  2. {timflow-0.2.0 → timflow-0.3.0}/PKG-INFO +3 -2
  3. {timflow-0.2.0 → timflow-0.3.0}/README.md +1 -1
  4. {timflow-0.2.0 → timflow-0.3.0}/docs/Makefile +1 -1
  5. {timflow-0.2.0 → timflow-0.3.0}/docs/_templates/autoapi/index.rst +1 -1
  6. timflow-0.3.0/docs/_templates/autoapi/python/class.rst +104 -0
  7. {timflow-0.2.0 → timflow-0.3.0}/docs/conf.py +18 -19
  8. {timflow-0.2.0 → timflow-0.3.0}/docs/index.rst +2 -0
  9. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/00userguide/tutorials/tutorial1_well_multi_layer_aquifer.ipynb +0 -7
  10. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/02examples/01_well_in_uniform_flow.ipynb +7 -0
  11. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/03xsections/cross_section_models.ipynb +36 -14
  12. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/04benchmarks/test_linesink_discharge.ipynb +1 -1
  13. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/04benchmarks/test_polygon_areasink.ipynb +8 -1
  14. timflow-0.3.0/docs/timings.rst +4 -0
  15. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/00userguide/howtos/howto_fluctuating_head_boundary.ipynb +1 -13
  16. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/00userguide/howtos/howto_pumpingtest.ipynb +1 -1
  17. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/00userguide/howtos/howto_select_a_model.ipynb +1 -13
  18. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/00userguide/tutorials/tutorial0_start_a_model.ipynb +1 -13
  19. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/02examples/connected_wells.ipynb +1 -13
  20. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/02examples/horizontal_well.ipynb +1 -13
  21. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/02examples/line_sink_well_sol.ipynb +2 -13
  22. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/02examples/meandering_river.ipynb +7 -15
  23. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/02examples/well_in_multilayer_system.ipynb +1 -13
  24. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/02examples/well_near_wall.ipynb +1 -1
  25. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/03xsections/1d_elements.ipynb +5 -17
  26. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/03xsections/1d_given_linesink.ipynb +2 -14
  27. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/03xsections/1d_inhom_elements.ipynb +20 -27
  28. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/03xsections/river_in_cross_section.ipynb +1 -1
  29. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/03xsections/stripareasink.ipynb +1 -13
  30. timflow-0.3.0/docs/transient/04pumpingtests/confined1_oude_korendijk.ipynb +381 -0
  31. timflow-0.3.0/docs/transient/04pumpingtests/confined2_grindley.ipynb +460 -0
  32. timflow-0.3.0/docs/transient/04pumpingtests/confined3_sioux.ipynb +440 -0
  33. timflow-0.3.0/docs/transient/04pumpingtests/confined4_nevada.ipynb +454 -0
  34. timflow-0.3.0/docs/transient/04pumpingtests/leaky1_dalem.ipynb +596 -0
  35. timflow-0.3.0/docs/transient/04pumpingtests/leaky2_hardixveld.ipynb +540 -0
  36. timflow-0.3.0/docs/transient/04pumpingtests/leaky3_texashill.ipynb +450 -0
  37. timflow-0.3.0/docs/transient/04pumpingtests/slug1_pratt_county.ipynb +460 -0
  38. timflow-0.3.0/docs/transient/04pumpingtests/slug2_multiwell.ipynb +443 -0
  39. timflow-0.3.0/docs/transient/04pumpingtests/slug3_falling_head.ipynb +414 -0
  40. timflow-0.3.0/docs/transient/04pumpingtests/slug4_dawsonville.ipynb +389 -0
  41. timflow-0.3.0/docs/transient/04pumpingtests/unconfined1_moench.ipynb +409 -0
  42. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/05benchmarks/river1d.ipynb +1 -13
  43. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/05benchmarks/ttim_neuman_comparison.ipynb +1 -13
  44. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/05benchmarks/validation_tidal_wave_with_Bruggeman.ipynb +1 -13
  45. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/05benchmarks/well_near_leaky_river.ipynb +1 -13
  46. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/05benchmarks/well_near_river_or_wall.ipynb +1 -13
  47. timflow-0.3.0/docs/utils/calibrating_timflow_models.ipynb +1696 -0
  48. timflow-0.3.0/docs/utils/index.rst +11 -0
  49. {timflow-0.2.0 → timflow-0.3.0}/pyproject.toml +1 -0
  50. {timflow-0.2.0 → timflow-0.3.0}/tests/steady/test_well.py +5 -5
  51. {timflow-0.2.0 → timflow-0.3.0}/tests/test_bessel.py +60 -60
  52. {timflow-0.2.0 → timflow-0.3.0}/timflow/__init__.py +1 -0
  53. timflow-0.3.0/timflow/bessel/besselnumba.py +1625 -0
  54. timflow-0.2.0/timflow/bessel/besselnumba.py → timflow-0.3.0/timflow/bessel/besselnumba_old.py +173 -8
  55. timflow-0.3.0/timflow/calibrate.py +1559 -0
  56. {timflow-0.2.0 → timflow-0.3.0}/timflow/plots/plots.py +354 -50
  57. {timflow-0.2.0 → timflow-0.3.0}/timflow/steady/__init__.py +6 -8
  58. {timflow-0.2.0 → timflow-0.3.0}/timflow/steady/aquifer.py +26 -17
  59. {timflow-0.2.0 → timflow-0.3.0}/timflow/steady/aquifer_parameters.py +15 -11
  60. {timflow-0.2.0 → timflow-0.3.0}/timflow/steady/inhomogeneity.py +30 -6
  61. {timflow-0.2.0 → timflow-0.3.0}/timflow/steady/inhomogeneity1d.py +29 -9
  62. {timflow-0.2.0 → timflow-0.3.0}/timflow/steady/linedoublet.py +1 -1
  63. {timflow-0.2.0 → timflow-0.3.0}/timflow/steady/linesink1d.py +4 -4
  64. {timflow-0.2.0 → timflow-0.3.0}/timflow/steady/model.py +218 -34
  65. {timflow-0.2.0 → timflow-0.3.0}/timflow/steady/plots.py +355 -220
  66. {timflow-0.2.0 → timflow-0.3.0}/timflow/steady/trace.py +116 -37
  67. {timflow-0.2.0 → timflow-0.3.0}/timflow/steady/well.py +17 -89
  68. {timflow-0.2.0 → timflow-0.3.0}/timflow/transient/__init__.py +6 -7
  69. {timflow-0.2.0 → timflow-0.3.0}/timflow/transient/aquifer.py +35 -9
  70. {timflow-0.2.0 → timflow-0.3.0}/timflow/transient/aquifer_parameters.py +5 -11
  71. {timflow-0.2.0 → timflow-0.3.0}/timflow/transient/element.py +4 -0
  72. {timflow-0.2.0 → timflow-0.3.0}/timflow/transient/fit.py +23 -20
  73. {timflow-0.2.0 → timflow-0.3.0}/timflow/transient/inhom1d.py +48 -35
  74. {timflow-0.2.0 → timflow-0.3.0}/timflow/transient/invlapnumba.py +7 -2
  75. {timflow-0.2.0 → timflow-0.3.0}/timflow/transient/linedoublet1d.py +29 -3
  76. {timflow-0.2.0 → timflow-0.3.0}/timflow/transient/linesink.py +44 -0
  77. {timflow-0.2.0 → timflow-0.3.0}/timflow/transient/linesink1d.py +6 -1
  78. {timflow-0.2.0 → timflow-0.3.0}/timflow/transient/model.py +194 -20
  79. timflow-0.3.0/timflow/transient/plots.py +437 -0
  80. {timflow-0.2.0 → timflow-0.3.0}/timflow/transient/stripareasink.py +14 -5
  81. timflow-0.3.0/timflow/version.py +68 -0
  82. {timflow-0.2.0 → timflow-0.3.0}/timflow.egg-info/PKG-INFO +3 -2
  83. {timflow-0.2.0 → timflow-0.3.0}/timflow.egg-info/SOURCES.txt +9 -1
  84. {timflow-0.2.0 → timflow-0.3.0}/timflow.egg-info/requires.txt +1 -0
  85. timflow-0.3.0/utils/compile_timflow_api.py +245 -0
  86. timflow-0.3.0/utils/run_notebook_tests.py +60 -0
  87. timflow-0.2.0/docs/transient/04pumpingtests/confined1_oude_korendijk.ipynb +0 -402
  88. timflow-0.2.0/docs/transient/04pumpingtests/confined2_grindley.ipynb +0 -474
  89. timflow-0.2.0/docs/transient/04pumpingtests/confined3_sioux.ipynb +0 -454
  90. timflow-0.2.0/docs/transient/04pumpingtests/confined4_nevada.ipynb +0 -504
  91. timflow-0.2.0/docs/transient/04pumpingtests/leaky1_dalem.ipynb +0 -448
  92. timflow-0.2.0/docs/transient/04pumpingtests/leaky2_hardixveld.ipynb +0 -340
  93. timflow-0.2.0/docs/transient/04pumpingtests/leaky3_texashill.ipynb +0 -464
  94. timflow-0.2.0/docs/transient/04pumpingtests/slug1_pratt_county.ipynb +0 -474
  95. timflow-0.2.0/docs/transient/04pumpingtests/slug2_multiwell.ipynb +0 -457
  96. timflow-0.2.0/docs/transient/04pumpingtests/slug3_falling_head.ipynb +0 -298
  97. timflow-0.2.0/docs/transient/04pumpingtests/slug4_dawsonville.ipynb +0 -409
  98. timflow-0.2.0/docs/transient/04pumpingtests/unconfined1_moench.ipynb +0 -285
  99. timflow-0.2.0/timflow/transient/plots.py +0 -296
  100. timflow-0.2.0/timflow/version.py +0 -32
  101. {timflow-0.2.0 → timflow-0.3.0}/.git-blame-ignore-revs +0 -0
  102. {timflow-0.2.0 → timflow-0.3.0}/.github/workflows/ci-general.yml +0 -0
  103. {timflow-0.2.0 → timflow-0.3.0}/.github/workflows/ci-steady.yml +0 -0
  104. {timflow-0.2.0 → timflow-0.3.0}/.github/workflows/ci-transient.yml +0 -0
  105. {timflow-0.2.0 → timflow-0.3.0}/.github/workflows/lint.yml +0 -0
  106. {timflow-0.2.0 → timflow-0.3.0}/.github/workflows/pypi-publish.yml +0 -0
  107. {timflow-0.2.0 → timflow-0.3.0}/.gitignore +0 -0
  108. {timflow-0.2.0 → timflow-0.3.0}/.python-version +0 -0
  109. {timflow-0.2.0 → timflow-0.3.0}/CITATION.cff +0 -0
  110. {timflow-0.2.0 → timflow-0.3.0}/LICENSE +0 -0
  111. {timflow-0.2.0 → timflow-0.3.0}/docs/_static/css/custom.css +0 -0
  112. {timflow-0.2.0 → timflow-0.3.0}/docs/_static/example_output_steady.png +0 -0
  113. {timflow-0.2.0 → timflow-0.3.0}/docs/_static/example_output_transient.png +0 -0
  114. {timflow-0.2.0 → timflow-0.3.0}/docs/_static/timflow_icon.png +0 -0
  115. {timflow-0.2.0 → timflow-0.3.0}/docs/_static/timflow_logo.jpeg +0 -0
  116. {timflow-0.2.0 → timflow-0.3.0}/docs/_templates/autoapi/python/module.rst +0 -0
  117. {timflow-0.2.0 → timflow-0.3.0}/docs/_templates/autosummary/class.rst +0 -0
  118. {timflow-0.2.0 → timflow-0.3.0}/docs/_templates/autosummary/module.rst +0 -0
  119. {timflow-0.2.0 → timflow-0.3.0}/docs/about/index.rst +0 -0
  120. {timflow-0.2.0 → timflow-0.3.0}/docs/about/publications.bib +0 -0
  121. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/00userguide/howtos/howto_convert_timml_model.ipynb +0 -0
  122. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/00userguide/howtos/howto_select_a_model.ipynb +0 -0
  123. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/00userguide/index.rst +0 -0
  124. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/00userguide/tutorials/tutorial0_well_single_layer_aquifer.ipynb +0 -0
  125. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/01concepts/elements/areasinks.rst +0 -0
  126. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/01concepts/elements/constant.rst +0 -0
  127. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/01concepts/elements/index.rst +0 -0
  128. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/01concepts/elements/inhoms.rst +0 -0
  129. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/01concepts/elements/linedoublets.rst +0 -0
  130. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/01concepts/elements/linesinks.rst +0 -0
  131. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/01concepts/elements/uflow.rst +0 -0
  132. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/01concepts/elements/wells.rst +0 -0
  133. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/01concepts/elements/xsection.rst +0 -0
  134. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/01concepts/index.rst +0 -0
  135. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/02examples/00_single_layer_model.ipynb +0 -0
  136. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/02examples/02_wells_rivers_and_recharge.ipynb +0 -0
  137. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/02examples/03a_modeling_inhomogeneities.ipynb +0 -0
  138. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/02examples/03b_modeling_inhomogeneities3D.ipynb +0 -0
  139. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/02examples/04_horizontal_wells.ipynb +0 -0
  140. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/02examples/05_impermeable_walls.ipynb +0 -0
  141. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/02examples/building_pit.ipynb +0 -0
  142. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/02examples/circular_area_sink.ipynb +0 -0
  143. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/02examples/collector_wells.ipynb +0 -0
  144. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/02examples/connected_wells.ipynb +0 -0
  145. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/02examples/figs/inhomogeneity_exercise3.png +0 -0
  146. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/02examples/figs/layout_exercise2.PNG +0 -0
  147. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/02examples/figs/timml_notebook2_layout.png +0 -0
  148. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/02examples/figs/timml_notebook2_layout_old.png +0 -0
  149. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/02examples/figs/timml_notebook5_layout.png +0 -0
  150. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/02examples/index.rst +0 -0
  151. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/02examples/vertical_anisotropy.ipynb +0 -0
  152. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/03xsections/index.rst +0 -0
  153. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/04benchmarks/besselnumba_timing.ipynb +0 -0
  154. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/04benchmarks/index.rst +0 -0
  155. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/04benchmarks/large_diameter_experimental.ipynb +0 -0
  156. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/04benchmarks/test_circular_buildingpit.ipynb +0 -0
  157. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/04benchmarks/test_linesinkstrings.ipynb +0 -0
  158. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/04benchmarks/test_normal_flux.ipynb +0 -0
  159. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/04benchmarks/test_well_near_lake.ipynb +0 -0
  160. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/04benchmarks/test_wells.ipynb +0 -0
  161. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/04benchmarks/test_wells_with_resistance.ipynb +0 -0
  162. {timflow-0.2.0 → timflow-0.3.0}/docs/steady/index.rst +0 -0
  163. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/00userguide/howtos/data/oudekorendijk_h30.dat +0 -0
  164. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/00userguide/howtos/data/oudekorendijk_h90.dat +0 -0
  165. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/00userguide/howtos/howto_convert_ttim_model.ipynb +0 -0
  166. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/00userguide/howtos/howto_xsection_model.ipynb +0 -0
  167. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/00userguide/index.rst +0 -0
  168. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/01concepts/elements/areasinks.rst +0 -0
  169. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/01concepts/elements/index.rst +0 -0
  170. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/01concepts/elements/linedoublets.rst +0 -0
  171. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/01concepts/elements/linesinks.rst +0 -0
  172. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/01concepts/elements/wells.rst +0 -0
  173. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/01concepts/index.rst +0 -0
  174. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/01concepts/pathlines.rst +0 -0
  175. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/02examples/circareasink_example.ipynb +0 -0
  176. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/02examples/higher_order_head_linesink.ipynb +0 -0
  177. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/02examples/index.rst +0 -0
  178. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/02examples/pathline_trace.ipynb +0 -0
  179. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/02examples/wells_in_different_systems.ipynb +0 -0
  180. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/03xsections/data/mf6_ttim_xsec_riv1.txt +0 -0
  181. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/03xsections/data/mf6_ttim_xsec_riv2.txt +0 -0
  182. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/03xsections/data/watex_cross_section.png +0 -0
  183. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/03xsections/data/watex_example.csv +0 -0
  184. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/03xsections/index.rst +0 -0
  185. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/04pumpingtests/data/dalem_p120.txt +0 -0
  186. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/04pumpingtests/data/dalem_p30.txt +0 -0
  187. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/04pumpingtests/data/dalem_p60.txt +0 -0
  188. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/04pumpingtests/data/dalem_p90.txt +0 -0
  189. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/04pumpingtests/data/dawsonville_slug.txt +0 -0
  190. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/04pumpingtests/data/double-porosity-110m.txt +0 -0
  191. {timflow-0.2.0 → timflow-0.3.0}/docs/transient/04pumpingtests/data/double-porosity-pumpingwell.txt +0 -0
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@@ -20,7 +20,6 @@ sphinx:
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  python:
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  install:
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- - method: pip
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  Metadata-Version: 2.4
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  Name: timflow
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  Summary: Analytic element modeling of groundwater flow
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  Author: Mark Bakker, Davíd Brakenhoff
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  Maintainer-email: Mark Bakker <markbak@gmail.com>, Davíd Brakenhoff <d.brakenhoff@artesia-water.nl>
@@ -77,6 +77,7 @@ Requires-Dist: numpydoc; extra == "docs"
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@@ -137,5 +138,5 @@ Some of the papers that you may want to cite when using `timflow` are:
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  * M. Bakker. 2013. Semi-analytic modeling of transient multi-layer flow with TTim.
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  Hydrogeology Journal, 21: 935-943. [https://doi.org/10.1007/s10040-013-0975-2](https://doi.org/10.1007/s10040-013-0975-2)
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  * M .Bakker. 2013. Analytic modeling of transient multi-layer flow. In: Advances in
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- Hydrogeology, edited by P Mishra and K Kuhlman, Springer, Heidelberg, 95-114. Available [here](https://github.com/mbakker7/timflow/blob/master/papers/2013_bakker_ttim_theory.pdf).
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+ Hydrogeology, edited by P Mishra and K Kuhlman, Springer, Heidelberg, 95-114. Available [here](https://github.com/timflow-org/timflow/blob/main/papers/2013_bakker_ttim_theory.pdf).
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+ Hydrogeology, edited by P Mishra and K Kuhlman, Springer, Heidelberg, 95-114. Available [here](https://github.com/timflow-org/timflow/blob/main/papers/2013_bakker_ttim_theory.pdf).
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  # You can set these variables from the command line, and also
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  =============
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  This section contains the Documentation of the Application Programming Interface (API)
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8
8
 
@@ -0,0 +1,104 @@
1
+ {% if obj.display %}
2
+ {% if is_own_page %}
3
+ {{ obj.short_name }}
4
+ {{ "=" * obj.short_name | length }}
5
+
6
+ {% endif %}
7
+ {% set visible_children = obj.children|selectattr("display")|list %}
8
+ {% set own_page_children = visible_children|selectattr("type", "in", own_page_types)|list %}
9
+ {% if is_own_page and own_page_children %}
10
+ .. toctree::
11
+ :hidden:
12
+
13
+ {% for child in own_page_children %}
14
+ {{ child.include_path }}
15
+ {% endfor %}
16
+
17
+ {% endif %}
18
+ .. py:{{ obj.type }}:: {% if is_own_page %}{{ obj.id }}{% else %}{{ obj.short_name }}{% endif %}{% if obj.type_params %}[{{ obj.type_params }}]{% endif %}{% if obj.args %}({{ obj.args }}){% endif %}
19
+
20
+ {% for (args, return_annotation) in obj.overloads %}
21
+ {{ " " * (obj.type | length) }} {{ obj.short_name }}{% if args %}({{ args }}){% endif %}
22
+
23
+ {% endfor %}
24
+ {% if obj.bases %}
25
+ {% if "show-inheritance" in autoapi_options %}
26
+
27
+ Bases: {% for base in obj.bases %}{{ base|link_objs }}{% if not loop.last %}, {% endif %}{% endfor %}
28
+ {% endif %}
29
+
30
+
31
+ {% if "show-inheritance-diagram" in autoapi_options and obj.bases != ["object"] %}
32
+ .. autoapi-inheritance-diagram:: {{ obj.obj["full_name"] }}
33
+ :parts: 1
34
+ {% if "private-members" in autoapi_options %}
35
+ :private-bases:
36
+ {% endif %}
37
+
38
+ {% endif %}
39
+ {% endif %}
40
+ {% if obj.docstring %}
41
+
42
+ {{ obj.docstring|indent(3) }}
43
+ {% endif %}
44
+ {% for obj_item in visible_children %}
45
+ {% if obj_item.type not in own_page_types %}
46
+
47
+ {{ obj_item.render()|indent(3) }}
48
+ {% endif %}
49
+ {% endfor %}
50
+ {% if is_own_page and own_page_children %}
51
+ {% set visible_attributes = own_page_children|selectattr("type", "equalto", "attribute")|list %}
52
+ {% if visible_attributes %}
53
+ Attributes
54
+ ----------
55
+
56
+ .. autoapisummary::
57
+
58
+ {% for attribute in visible_attributes %}
59
+ {{ attribute.id }}
60
+ {% endfor %}
61
+
62
+
63
+ {% endif %}
64
+ {% set visible_exceptions = own_page_children|selectattr("type", "equalto", "exception")|list %}
65
+ {% if visible_exceptions %}
66
+ Exceptions
67
+ ----------
68
+
69
+ .. autoapisummary::
70
+
71
+ {% for exception in visible_exceptions %}
72
+ {{ exception.id }}
73
+ {% endfor %}
74
+
75
+
76
+ {% endif %}
77
+ {% set visible_classes = own_page_children|selectattr("type", "equalto", "class")|list %}
78
+ {% if visible_classes %}
79
+ Classes
80
+ -------
81
+
82
+ .. autoapisummary::
83
+
84
+ {% for klass in visible_classes %}
85
+ {{ klass.id }}
86
+ {% endfor %}
87
+
88
+
89
+ {% endif %}
90
+ {% set visible_methods = own_page_children|selectattr("type", "equalto", "method")|list %}
91
+ {% if visible_methods %}
92
+ Methods
93
+ -------
94
+
95
+ .. autoapisummary::
96
+
97
+ {% for method in visible_methods %}
98
+ {{ method.id }}
99
+ {% endfor %}
100
+
101
+
102
+ {% endif %}
103
+ {% endif %}
104
+ {% endif %}
@@ -31,7 +31,7 @@ extensions = [
31
31
  ]
32
32
 
33
33
  # templates_path = ["_templates"]
34
- exclude_patterns = ["_build", "Thumbs.db", ".DS_Store"]
34
+ exclude_patterns = ["_build", "_templates", "Thumbs.db", ".DS_Store"]
35
35
 
36
36
  # -- Options for HTML output -------------------------------------------------
37
37
  # https://www.sphinx-doc.org/en/master/usage/configuration.html#options-for-html-output
@@ -79,8 +79,16 @@ autoapi_options = [
79
79
  "inherited-members",
80
80
  "show-inheritance",
81
81
  ]
82
- autoapi_own_page_level = "method"
82
+ autoapi_own_page_level = "class"
83
83
  autoapi_template_dir = "_templates/autoapi"
84
+ suppress_warnings = ["autoapi"]
85
+
86
+ # Keep API signatures and section navigation compact by omitting module prefixes
87
+ # (e.g., show `River` instead of `timflow.steady.linesink.River`).
88
+ add_module_names = False
89
+
90
+ # Keep local object TOC entries compact in the right sidebar.
91
+ toc_object_entries_show_parents = "hide"
84
92
 
85
93
  # -- Numpydoc settings ----------------------------------------------------------------
86
94
 
@@ -99,31 +107,22 @@ intersphinx_mapping = {
99
107
 
100
108
  # -- myst_nb options ------------------------------------------------------------------
101
109
 
110
+ nb_execution_mode = "cache"
111
+
102
112
  nb_execution_allow_errors = True # Allow errors in notebooks, to see the error online
103
- nb_execution_mode = "auto"
104
- nb_merge_streams = True
113
+ nb_execution_show_tb = True
114
+ nb_execution_timeout = 100
105
115
  nb_execution_excludepatterns = [
106
116
  "besselnumba_timing.ipynb",
107
117
  "vertical_anisotropy.ipynb",
118
+ "transient/04pumpingtests/*.ipynb",
108
119
  ]
109
120
 
110
121
  myst_enable_extensions = ["dollarmath", "amsmath", "html_image"]
111
122
  myst_dmath_double_inline = True
112
- nb_render_markdown_format = "myst" # Enable MyST markdown parsing in notebooks
113
- nb_render_text_lexer = "myst-ansi" # Better rendering of ANSI output
114
- # nb_mime_priority_overrides = {
115
- # "html": (
116
- # "application/vnd.jupyter.widget-view+json",
117
- # "application/javascript",
118
- # "text/html",
119
- # "image/svg+xml",
120
- # "image/png",
121
- # "image/jpeg",
122
- # "text/markdown",
123
- # "text/latex",
124
- # "text/plain",
125
- # )
126
- # }
123
+
124
+ nb_merge_streams = True
125
+
127
126
 
128
127
  # -- bibtex options ------------------------------------------------------------------
129
128
 
@@ -54,5 +54,7 @@ view the code documentation.
54
54
 
55
55
  Steady <steady/index>
56
56
  Transient <transient/index>
57
+ Utilities <utils/index>
57
58
  Code Reference <api/index>
59
+ Timings <timings>
58
60
  Cite <about/index>
@@ -250,13 +250,6 @@
250
250
  " ax=axes,\n",
251
251
  ")"
252
252
  ]
253
- },
254
- {
255
- "cell_type": "code",
256
- "execution_count": null,
257
- "metadata": {},
258
- "outputs": [],
259
- "source": []
260
253
  }
261
254
  ],
262
255
  "metadata": {
@@ -222,6 +222,13 @@
222
222
  "print(\"The discharge at the abandoned well is:\")\n",
223
223
  "print(wabandoned.discharge())"
224
224
  ]
225
+ },
226
+ {
227
+ "cell_type": "code",
228
+ "execution_count": null,
229
+ "metadata": {},
230
+ "outputs": [],
231
+ "source": []
225
232
  }
226
233
  ],
227
234
  "metadata": {
@@ -124,7 +124,9 @@
124
124
  "outputs": [],
125
125
  "source": [
126
126
  "fig, ax = plt.subplots(1, 1, figsize=(10, 3))\n",
127
- "ml.plots.xsection(xy=[(-150, 0), (150, 0)], ax=ax, params=True);"
127
+ "ml.plots.xsection(\n",
128
+ " xy=[(-150, 0), (150, 0)], ax=ax, params=True, units={\"kaq\": \"m/d\", \"c\": \"d\"}\n",
129
+ ")"
128
130
  ]
129
131
  },
130
132
  {
@@ -149,7 +151,9 @@
149
151
  "metadata": {},
150
152
  "outputs": [],
151
153
  "source": [
152
- "ml.plots.vcontoursf1D(x1=-200, x2=200, nx=100, levels=20, color=\"C0\", figsize=(10, 3));"
154
+ "ml.plots.vcontour_stream_function(\n",
155
+ " x1=-200, x2=200, nx=100, levels=20, color=\"C0\", figsize=(10, 3)\n",
156
+ ");"
153
157
  ]
154
158
  },
155
159
  {
@@ -238,7 +242,9 @@
238
242
  "metadata": {},
239
243
  "outputs": [],
240
244
  "source": [
241
- "ml.plots.vcontoursf1D(x1=-200, x2=200, nx=100, levels=20, color=\"C0\", figsize=(10, 3));"
245
+ "ml.plots.vcontour_stream_function(\n",
246
+ " x1=-200, x2=200, nx=100, levels=20, color=\"C0\", figsize=(10, 3)\n",
247
+ ");"
242
248
  ]
243
249
  },
244
250
  {
@@ -302,7 +308,7 @@
302
308
  "metadata": {},
303
309
  "outputs": [],
304
310
  "source": [
305
- "ax = ml.plots.vcontoursf1D(\n",
311
+ "ax = ml.plots.vcontour_stream_function(\n",
306
312
  " x1=-200, x2=200, nx=100, levels=20, color=\"C0\", figsize=(10, 3), horizontal_axis=\"x\"\n",
307
313
  ")\n",
308
314
  "ld1.plot(ax); # plot wall"
@@ -359,7 +365,9 @@
359
365
  "tfs.Constant(ml, 100, 0, 10)\n",
360
366
  "ml.solve()\n",
361
367
  "\n",
362
- "ml.plots.vcontoursf1D(x1=-100, x2=100, nx=100, levels=20, color=\"C0\", figsize=(10, 3));"
368
+ "ml.plots.vcontour_stream_function(\n",
369
+ " x1=-100, x2=100, nx=100, levels=20, color=\"C0\", figsize=(10, 3)\n",
370
+ ");"
363
371
  ]
364
372
  },
365
373
  {
@@ -372,7 +380,7 @@
372
380
  "tfs.XsectionAreaSink(ml2, -50, 50, 0.001)\n",
373
381
  "tfs.Constant(ml2, -100, 0, 10)\n",
374
382
  "ml2.solve()\n",
375
- "ml2.plots.vcontoursf1D(\n",
383
+ "ml2.plots.vcontour_stream_function(\n",
376
384
  " x1=-100, x2=100, nx=100, levels=20, color=\"C0\", figsize=(10, 3), horizontal_axis=\"x\"\n",
377
385
  ");"
378
386
  ]
@@ -419,7 +427,9 @@
419
427
  "\n",
420
428
  "ml.solve()\n",
421
429
  "\n",
422
- "ml.plots.vcontoursf1D(x1=-20, x2=20, nx=100, levels=20, color=\"C0\", figsize=(10, 3));"
430
+ "ml.plots.vcontour_stream_function(\n",
431
+ " x1=-20, x2=20, nx=100, levels=20, color=\"C0\", figsize=(10, 3)\n",
432
+ ");"
423
433
  ]
424
434
  },
425
435
  {
@@ -448,7 +458,9 @@
448
458
  "\n",
449
459
  "ml.solve()\n",
450
460
  "\n",
451
- "ml.plots.vcontoursf1D(x1=-20, x2=20, nx=100, levels=20, color=\"C0\", figsize=(10, 3));"
461
+ "ml.plots.vcontour_stream_function(\n",
462
+ " x1=-20, x2=20, nx=100, levels=20, color=\"C0\", figsize=(10, 3)\n",
463
+ ");"
452
464
  ]
453
465
  },
454
466
  {
@@ -499,9 +511,7 @@
499
511
  "execution_count": null,
500
512
  "metadata": {},
501
513
  "outputs": [],
502
- "source": [
503
- "from timflow.steady.linesink1d import FluxDiffLineSink1D, HeadDiffLineSink1D"
504
- ]
514
+ "source": []
505
515
  },
506
516
  {
507
517
  "cell_type": "code",
@@ -512,8 +522,8 @@
512
522
  "ml = tfs.ModelMaq(kaq=[10], z=[0, -10], topboundary=\"conf\")\n",
513
523
  "ls = tfs.River1D(ml, xls=0, hls=1, wh=\"H\", layers=0)\n",
514
524
  "ls = tfs.River1D(ml, xls=200, hls=0, wh=\"H\", layers=0)\n",
515
- "hd = HeadDiffLineSink1D(ml, xls=100)\n",
516
- "fd = FluxDiffLineSink1D(ml, xls=100)\n",
525
+ "hd = tfs.linesink1d.HeadDiffLineSink1D(ml, xls=100)\n",
526
+ "fd = tfs.linesink1d.FluxDiffLineSink1D(ml, xls=100)\n",
517
527
  "ml.solve()\n",
518
528
  "\n",
519
529
  "x = np.linspace(0, 200, 101)\n",
@@ -526,9 +536,21 @@
526
536
  ],
527
537
  "metadata": {
528
538
  "kernelspec": {
529
- "display_name": "Python 3",
539
+ "display_name": "timflow (3.13.11)",
530
540
  "language": "python",
531
541
  "name": "python3"
542
+ },
543
+ "language_info": {
544
+ "codemirror_mode": {
545
+ "name": "ipython",
546
+ "version": 3
547
+ },
548
+ "file_extension": ".py",
549
+ "mimetype": "text/x-python",
550
+ "name": "python",
551
+ "nbconvert_exporter": "python",
552
+ "pygments_lexer": "ipython3",
553
+ "version": "3.13.11"
532
554
  }
533
555
  },
534
556
  "nbformat": 4,
@@ -36,7 +36,7 @@
36
36
  "source": [
37
37
  "ml1 = tfs.ModelMaq(kaq=20)\n",
38
38
  "rf1 = tfs.Constant(ml1, xr=0, yr=20, hr=30)\n",
39
- "ls1 = tfs.LineSinkBase(ml1, x1=-10, y1=-10, x2=10, y2=10, Qls=1000)\n",
39
+ "ls1 = tfs.linesink.LineSinkBase(ml1, x1=-10, y1=-10, x2=10, y2=10, Qls=1000)\n",
40
40
  "ml1.solve()"
41
41
  ]
42
42
  },
@@ -83,7 +83,7 @@
83
83
  "d2hdx2 = (ml.head(x + d, y) - 2 * ml.head(x, y) + ml.head(x - d, y)) / (d**2)\n",
84
84
  "d2hdy2 = (ml.head(x, y + d) - 2 * ml.head(x, y) + ml.head(x, y - d)) / (d**2)\n",
85
85
  "d2hdx2 + d2hdy2\n",
86
- "aqin = ml.aq.inhomlist[0]\n",
86
+ "aqin = ml.aq.inhomdict[p1.name]\n",
87
87
  "print(\"recharge from numerical derivative: \", np.sum(aqin.T * (d2hdx2 + d2hdy2)))\n",
88
88
  "h = ml.head(x, y)\n",
89
89
  "print(\"leakage from aq0 to aq1 from head difference: \", (h[1] - h[0]) / aqin.c[1])\n",
@@ -92,6 +92,13 @@
92
92
  " aqin.T[1] * (d2hdx2[1] + d2hdy2[1]),\n",
93
93
  ")"
94
94
  ]
95
+ },
96
+ {
97
+ "cell_type": "code",
98
+ "execution_count": null,
99
+ "metadata": {},
100
+ "outputs": [],
101
+ "source": []
95
102
  }
96
103
  ],
97
104
  "metadata": {
@@ -0,0 +1,4 @@
1
+ Timings
2
+ =======
3
+
4
+ .. nb-exec-table::
@@ -255,21 +255,9 @@
255
255
  ],
256
256
  "metadata": {
257
257
  "kernelspec": {
258
- "display_name": "Python 3 (ipykernel)",
258
+ "display_name": "Python 3",
259
259
  "language": "python",
260
260
  "name": "python3"
261
- },
262
- "language_info": {
263
- "codemirror_mode": {
264
- "name": "ipython",
265
- "version": 3
266
- },
267
- "file_extension": ".py",
268
- "mimetype": "text/x-python",
269
- "name": "python",
270
- "nbconvert_exporter": "python",
271
- "pygments_lexer": "ipython3",
272
- "version": "3.13.5"
273
261
  }
274
262
  },
275
263
  "nbformat": 4,
@@ -155,7 +155,7 @@
155
155
  " t=to1, # observation times\n",
156
156
  " h=ho1, # observed heads\n",
157
157
  ")\n",
158
- "cal.fit(report=False)"
158
+ "cal.fit(report=True)"
159
159
  ]
160
160
  },
161
161
  {
@@ -84,21 +84,9 @@
84
84
  ],
85
85
  "metadata": {
86
86
  "kernelspec": {
87
- "display_name": "Python 3 (ipykernel)",
87
+ "display_name": "Python 3",
88
88
  "language": "python",
89
89
  "name": "python3"
90
- },
91
- "language_info": {
92
- "codemirror_mode": {
93
- "name": "ipython",
94
- "version": 3
95
- },
96
- "file_extension": ".py",
97
- "mimetype": "text/x-python",
98
- "name": "python",
99
- "nbconvert_exporter": "python",
100
- "pygments_lexer": "ipython3",
101
- "version": "3.13.5"
102
90
  }
103
91
  },
104
92
  "nbformat": 4,
@@ -133,21 +133,9 @@
133
133
  ],
134
134
  "metadata": {
135
135
  "kernelspec": {
136
- "display_name": "Python 3 (ipykernel)",
136
+ "display_name": "Python 3",
137
137
  "language": "python",
138
138
  "name": "python3"
139
- },
140
- "language_info": {
141
- "codemirror_mode": {
142
- "name": "ipython",
143
- "version": 3
144
- },
145
- "file_extension": ".py",
146
- "mimetype": "text/x-python",
147
- "name": "python",
148
- "nbconvert_exporter": "python",
149
- "pygments_lexer": "ipython3",
150
- "version": "3.13.5"
151
139
  }
152
140
  },
153
141
  "nbformat": 4,
@@ -567,21 +567,9 @@
567
567
  ],
568
568
  "metadata": {
569
569
  "kernelspec": {
570
- "display_name": "Python 3 (ipykernel)",
570
+ "display_name": "Python 3",
571
571
  "language": "python",
572
572
  "name": "python3"
573
- },
574
- "language_info": {
575
- "codemirror_mode": {
576
- "name": "ipython",
577
- "version": 3
578
- },
579
- "file_extension": ".py",
580
- "mimetype": "text/x-python",
581
- "name": "python",
582
- "nbconvert_exporter": "python",
583
- "pygments_lexer": "ipython3",
584
- "version": "3.13.5"
585
573
  }
586
574
  },
587
575
  "nbformat": 4,
@@ -162,21 +162,9 @@
162
162
  ],
163
163
  "metadata": {
164
164
  "kernelspec": {
165
- "display_name": "Python 3 (ipykernel)",
165
+ "display_name": "Python 3",
166
166
  "language": "python",
167
167
  "name": "python3"
168
- },
169
- "language_info": {
170
- "codemirror_mode": {
171
- "name": "ipython",
172
- "version": 3
173
- },
174
- "file_extension": ".py",
175
- "mimetype": "text/x-python",
176
- "name": "python",
177
- "nbconvert_exporter": "python",
178
- "pygments_lexer": "ipython3",
179
- "version": "3.13.5"
180
168
  }
181
169
  },
182
170
  "nbformat": 4,
@@ -118,6 +118,7 @@
118
118
  " labels=True,\n",
119
119
  " decimals=2,\n",
120
120
  " ax=ax,\n",
121
+ " parallel=True,\n",
121
122
  " )\n",
122
123
  " ax.set_aspect(\"equal\", adjustable=\"box\")"
123
124
  ]
@@ -178,21 +179,9 @@
178
179
  ],
179
180
  "metadata": {
180
181
  "kernelspec": {
181
- "display_name": "Python 3 (ipykernel)",
182
+ "display_name": "Python 3",
182
183
  "language": "python",
183
184
  "name": "python3"
184
- },
185
- "language_info": {
186
- "codemirror_mode": {
187
- "name": "ipython",
188
- "version": 3
189
- },
190
- "file_extension": ".py",
191
- "mimetype": "text/x-python",
192
- "name": "python",
193
- "nbconvert_exporter": "python",
194
- "pygments_lexer": "ipython3",
195
- "version": "3.13.5"
196
185
  }
197
186
  },
198
187
  "nbformat": 4,
@@ -62,7 +62,9 @@
62
62
  "metadata": {},
63
63
  "outputs": [],
64
64
  "source": [
65
- "ml.plots.contour(win=[-150, 150, -50, 50], ngr=40, t=1, layers=1, labels=False);"
65
+ "ml.plots.contour(\n",
66
+ " win=[-150, 150, -50, 50], ngr=40, t=1, layers=1, labels=False, parallel=True\n",
67
+ ");"
66
68
  ]
67
69
  },
68
70
  {
@@ -71,27 +73,17 @@
71
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  "metadata": {},
72
74
  "outputs": [],
73
75
  "source": [
74
- "ml.plots.contour(win=[-150, 150, -50, 50], ngr=40, t=1, layers=2, labels=False);"
76
+ "ml.plots.contour(\n",
77
+ " win=[-150, 150, -50, 50], ngr=40, t=1, layers=2, labels=False, parallel=True\n",
78
+ ");"
75
79
  ]
76
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  }
77
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  ],
78
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  "metadata": {
79
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  "kernelspec": {
80
- "display_name": "Python 3 (ipykernel)",
84
+ "display_name": "Python 3",
81
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  "language": "python",
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  "name": "python3"
83
- },
84
- "language_info": {
85
- "codemirror_mode": {
86
- "name": "ipython",
87
- "version": 3
88
- },
89
- "file_extension": ".py",
90
- "mimetype": "text/x-python",
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- "name": "python",
92
- "nbconvert_exporter": "python",
93
- "pygments_lexer": "ipython3",
94
- "version": "3.13.5"
95
87
  }
96
88
  },
97
89
  "nbformat": 4,
@@ -224,21 +224,9 @@
224
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  ],
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  "metadata": {
226
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  "kernelspec": {
227
- "display_name": "Python 3 (ipykernel)",
227
+ "display_name": "Python 3",
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  "language": "python",
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  "name": "python3"
230
- },
231
- "language_info": {
232
- "codemirror_mode": {
233
- "name": "ipython",
234
- "version": 3
235
- },
236
- "file_extension": ".py",
237
- "mimetype": "text/x-python",
238
- "name": "python",
239
- "nbconvert_exporter": "python",
240
- "pygments_lexer": "ipython3",
241
- "version": "3.13.5"
242
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  }
243
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  },
244
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  "nbformat": 4,