morphomatics 4.1.2__tar.gz → 4.2__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 (71) hide show
  1. {morphomatics-4.1.2 → morphomatics-4.2}/PKG-INFO +1 -1
  2. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/__init__.py +1 -1
  3. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/correspondence/__init__.py +1 -1
  4. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/correspondence/convert.py +1 -1
  5. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/correspondence/laplacian.py +1 -1
  6. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/correspondence/refine.py +1 -1
  7. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/correspondence/util.py +1 -1
  8. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/geom/__init__.py +1 -1
  9. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/geom/bezier_spline.py +1 -1
  10. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/geom/misc.py +1 -1
  11. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/geom/surface.py +1 -1
  12. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/graph/__init__.py +1 -1
  13. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/graph/operators.py +1 -1
  14. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/__init__.py +1 -1
  15. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/bezierfold.py +2 -2
  16. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/connection.py +1 -1
  17. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/cubic_bezierfold.py +1 -1
  18. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/diffeomorphism.py +1 -1
  19. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/differential_coords.py +1 -1
  20. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/discrete_ops.py +1 -1
  21. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/euclidean.py +1 -1
  22. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/fundamental_coords.py +1 -1
  23. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/gl_p_coords.py +1 -1
  24. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/gl_p_n.py +1 -1
  25. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/grassmann.py +1 -1
  26. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/hyperbolic_space.py +3 -3
  27. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/kendall.py +1 -1
  28. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/lie_group.py +1 -1
  29. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/manifold.py +1 -1
  30. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/manopt_wrapper.py +1 -1
  31. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/metric.py +1 -1
  32. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/point_distribution_model.py +1 -1
  33. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/power_manifold.py +38 -32
  34. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/product_manifold.py +15 -7
  35. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/se_3.py +10 -6
  36. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/shape_space.py +1 -1
  37. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/simplex.py +1 -1
  38. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/size_and_shape.py +1 -1
  39. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/so_3.py +1 -1
  40. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/spd.py +1 -1
  41. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/sphere.py +1 -1
  42. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/tangent_bundle.py +1 -1
  43. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/util.py +1 -1
  44. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/nn/__init__.py +1 -1
  45. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/nn/euclidean_layers.py +14 -11
  46. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/nn/flow_layers.py +65 -54
  47. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/nn/tangent_layers.py +69 -61
  48. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/nn/wFM_layers.py +42 -42
  49. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/opt/__init__.py +1 -1
  50. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/opt/riemannian_newton_raphson.py +1 -1
  51. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/opt/riemannian_steepest_descent.py +3 -3
  52. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/stats/__init__.py +2 -1
  53. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/stats/biinvariant_dissimilarity_measures.py +12 -55
  54. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/stats/biinvariant_regression.py +13 -13
  55. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/stats/exponential_barycenter.py +1 -1
  56. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/stats/geometric_median.py +1 -1
  57. morphomatics-4.2/morphomatics/stats/hypothesis_tests.py +63 -0
  58. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/stats/principal_geodesic_analysis.py +6 -9
  59. morphomatics-4.2/morphomatics/stats/riemannian_dissimilarity_measures.py +111 -0
  60. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/stats/riemannian_regression.py +45 -18
  61. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/stats/statistical_shape_model.py +1 -1
  62. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics.egg-info/PKG-INFO +1 -1
  63. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics.egg-info/SOURCES.txt +2 -0
  64. {morphomatics-4.1.2 → morphomatics-4.2}/setup.py +1 -1
  65. {morphomatics-4.1.2 → morphomatics-4.2}/LICENSE +0 -0
  66. {morphomatics-4.1.2 → morphomatics-4.2}/README.md +0 -0
  67. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/nn/train.py +0 -0
  68. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics.egg-info/dependency_links.txt +0 -0
  69. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics.egg-info/requires.txt +0 -0
  70. {morphomatics-4.1.2 → morphomatics-4.2}/morphomatics.egg-info/top_level.txt +0 -0
  71. {morphomatics-4.1.2 → morphomatics-4.2}/setup.cfg +0 -0
{morphomatics-4.1.2 → morphomatics-4.2}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.4
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  Name: morphomatics
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- Version: 4.1.2
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+ Version: 4.2
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  Summary: Geometric morphometrics in non-Euclidean shape spaces
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  Home-page: https://morphomatics.github.io/
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  Author: Christoph von Tycowicz et al.
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/__init__.py RENAMED
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  # #
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  ################################################################################
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- __version__ = '4.1.2'
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+ __version__ = '4.2'
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/correspondence/__init__.py RENAMED
@@ -3,7 +3,7 @@
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  # This file is part of the Morphomatics library #
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  # see https://github.com/morphomatics/morphomatics #
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  # #
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- # Copyright (C) 2025 Zuse Institute Berlin #
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+ # Copyright (C) 2026 Zuse Institute Berlin #
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  # #
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  # Morphomatics is distributed under the terms of the MIT License. #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/correspondence/convert.py RENAMED
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  # This file is part of the Morphomatics library #
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  # see https://github.com/morphomatics/morphomatics #
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  # #
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- # Copyright (C) 2025 Zuse Institute Berlin #
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+ # Copyright (C) 2026 Zuse Institute Berlin #
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  # #
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  # Morphomatics is distributed under the terms of the MIT License. #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/correspondence/laplacian.py RENAMED
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  # This file is part of the Morphomatics library #
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  # see https://github.com/morphomatics/morphomatics #
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  # #
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- # Copyright (C) 2025 Zuse Institute Berlin #
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+ # Copyright (C) 2026 Zuse Institute Berlin #
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  # #
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  # Morphomatics is distributed under the terms of the MIT License. #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/correspondence/refine.py RENAMED
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  # This file is part of the Morphomatics library #
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  # see https://github.com/morphomatics/morphomatics #
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  # #
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- # Copyright (C) 2025 Zuse Institute Berlin #
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+ # Copyright (C) 2026 Zuse Institute Berlin #
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  # #
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  # Morphomatics is distributed under the terms of the MIT License. #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/correspondence/util.py RENAMED
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  # This file is part of the Morphomatics library #
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  # see https://github.com/morphomatics/morphomatics #
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  # #
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- # Copyright (C) 2025 Zuse Institute Berlin #
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+ # Copyright (C) 2026 Zuse Institute Berlin #
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  # #
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  # Morphomatics is distributed under the terms of the MIT License. #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/geom/__init__.py RENAMED
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  # This file is part of the Morphomatics library #
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  # see https://github.com/morphomatics/morphomatics #
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  # #
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- # Copyright (C) 2025 Zuse Institute Berlin #
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+ # Copyright (C) 2026 Zuse Institute Berlin #
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  # #
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  # Morphomatics is distributed under the terms of the MIT License. #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/geom/bezier_spline.py RENAMED
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  # This file is part of the Morphomatics library #
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  # see https://github.com/morphomatics/morphomatics #
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  # #
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- # Copyright (C) 2025 Zuse Institute Berlin #
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+ # Copyright (C) 2026 Zuse Institute Berlin #
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  # #
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  # Morphomatics is distributed under the terms of the MIT License. #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/geom/misc.py RENAMED
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  # This file is part of the Morphomatics library #
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  # see https://github.com/morphomatics/morphomatics #
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  # #
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- # Copyright (C) 2025 Zuse Institute Berlin #
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+ # Copyright (C) 2026 Zuse Institute Berlin #
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  # #
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  # Morphomatics is distributed under the terms of the MIT License. #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/geom/surface.py RENAMED
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  # This file is part of the Morphomatics library #
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  # see https://github.com/morphomatics/morphomatics #
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  # #
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- # Copyright (C) 2025 Zuse Institute Berlin #
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+ # Copyright (C) 2026 Zuse Institute Berlin #
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  # #
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  # Morphomatics is distributed under the terms of the MIT License. #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/graph/__init__.py RENAMED
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  # This file is part of the Morphomatics library #
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  # see https://github.com/morphomatics/morphomatics #
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  # #
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- # Copyright (C) 2025 Zuse Institute Berlin #
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+ # Copyright (C) 2026 Zuse Institute Berlin #
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  # #
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  # Morphomatics is distributed under the terms of the MIT License. #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/graph/operators.py RENAMED
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  # This file is part of the Morphomatics library #
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  # see https://github.com/morphomatics/morphomatics #
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  # #
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- # Copyright (C) 2025 Zuse Institute Berlin #
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+ # Copyright (C) 2026 Zuse Institute Berlin #
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  # #
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  # Morphomatics is distributed under the terms of the MIT License. #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/__init__.py RENAMED
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  # This file is part of the Morphomatics library #
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  # see https://github.com/morphomatics/morphomatics #
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  # #
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- # Copyright (C) 2025 Zuse Institute Berlin #
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+ # Copyright (C) 2026 Zuse Institute Berlin #
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  # #
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  # Morphomatics is distributed under the terms of the MIT License. #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/bezierfold.py RENAMED
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  # This file is part of the Morphomatics library #
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  # see https://github.com/morphomatics/morphomatics #
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- # Copyright (C) 2025 Zuse Institute Berlin #
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+ # Copyright (C) 2026 Zuse Institute Berlin #
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  # #
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  # Morphomatics is distributed under the terms of the MIT License. #
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  # see $MORPHOMATICS/LICENSE #
@@ -478,7 +478,7 @@ def curve_shortening_step(Bf: Bezierfold, x: jnp.array) -> Tuple[jnp.array, floa
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  post = sample(Bf, post, t)
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  # update (fit cur to pre & post)
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  Y = jnp.concatenate([pre, post])
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- opt = RiemannianRegression.fit(Bf.M, Y, tt, cur, deg, nseg, maxiter=1, iscycle=Bf.iscycle)
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+ opt = RiemannianRegression.fit(Bf.M, Y, tt, cur, deg, nseg, max_iter=1, iscycle=Bf.iscycle)
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  # update inf-norm
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  d = jnp.array([d, jnp.abs(opt - cur).max()]).max()
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  #d = jnp.array([d, jnp.linalg.norm(jnp.ravel(opt - cur), ord=jnp.inf)]).max()
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/connection.py RENAMED
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  # This file is part of the Morphomatics library #
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  # see https://github.com/morphomatics/morphomatics #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/cubic_bezierfold.py RENAMED
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  # see https://github.com/morphomatics/morphomatics #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/diffeomorphism.py RENAMED
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  # see https://github.com/morphomatics/morphomatics #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/differential_coords.py RENAMED
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  # see https://github.com/morphomatics/morphomatics #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/discrete_ops.py RENAMED
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  # see https://github.com/morphomatics/morphomatics #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/euclidean.py RENAMED
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  # see https://github.com/morphomatics/morphomatics #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/fundamental_coords.py RENAMED
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  # see https://github.com/morphomatics/morphomatics #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/gl_p_coords.py RENAMED
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  # see https://github.com/morphomatics/morphomatics #
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{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/gl_p_n.py RENAMED
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  # see https://github.com/morphomatics/morphomatics #
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{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/grassmann.py RENAMED
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/hyperbolic_space.py RENAMED
@@ -3,7 +3,7 @@
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  # This file is part of the Morphomatics library #
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  # see https://github.com/morphomatics/morphomatics #
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  # #
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- # Copyright (C) 2025 Zuse Institute Berlin #
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+ # Copyright (C) 2026 Zuse Institute Berlin #
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  # #
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  # Morphomatics is distributed under the terms of the MIT License. #
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  # see $MORPHOMATICS/LICENSE #
@@ -127,7 +127,7 @@ class HyperbolicSpace(Manifold):
127
127
 
128
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  def squared_dist(self, p, q):
129
129
  # in theory minkowski_inner(p, q) < -1 always holds, but for numerical reasons we clip
130
- mink_inner_neg = jnp.clip(-HyperbolicSpace.minkowski_inner(p, q), a_min=1)
130
+ mink_inner_neg = jnp.clip(-HyperbolicSpace.minkowski_inner(p, q), min=1)
131
131
 
132
132
  def trunc_dist_sq(x):
133
133
  # 4th order approximation of arccosh**2 around 1
@@ -154,7 +154,7 @@ class HyperbolicSpace(Manifold):
154
154
  return p+X + 1/6 * n2 * (3*p+X) + 1/120 * n2**2 * (5*p+X)
155
155
 
156
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  sqnorm_X = self.inner(p, X, X)
157
- sqnorm_X = jnp.clip(sqnorm_X, a_min=0.)
157
+ sqnorm_X = jnp.clip(sqnorm_X, min=0.)
158
158
 
159
159
  p = jax.lax.cond(sqnorm_X < 1e-6, trunc_exp, full_exp, sqnorm_X)
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160
 
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/kendall.py RENAMED
@@ -3,7 +3,7 @@
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  # This file is part of the Morphomatics library #
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  # see https://github.com/morphomatics/morphomatics #
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  # #
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- # Copyright (C) 2025 Zuse Institute Berlin #
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+ # Copyright (C) 2026 Zuse Institute Berlin #
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  # #
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  # Morphomatics is distributed under the terms of the MIT License. #
9
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/lie_group.py RENAMED
@@ -3,7 +3,7 @@
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  # This file is part of the Morphomatics library #
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  # see https://github.com/morphomatics/morphomatics #
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  # #
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- # Copyright (C) 2025 Zuse Institute Berlin #
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+ # Copyright (C) 2026 Zuse Institute Berlin #
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  # #
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  # Morphomatics is distributed under the terms of the MIT License. #
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/manifold.py RENAMED
@@ -3,7 +3,7 @@
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  # This file is part of the Morphomatics library #
4
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  # see https://github.com/morphomatics/morphomatics #
5
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  # #
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- # Copyright (C) 2025 Zuse Institute Berlin #
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+ # Copyright (C) 2026 Zuse Institute Berlin #
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  # #
8
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  # Morphomatics is distributed under the terms of the MIT License. #
9
9
  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/manopt_wrapper.py RENAMED
@@ -3,7 +3,7 @@
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  # This file is part of the Morphomatics library #
4
4
  # see https://github.com/morphomatics/morphomatics #
5
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  # #
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- # Copyright (C) 2025 Zuse Institute Berlin #
6
+ # Copyright (C) 2026 Zuse Institute Berlin #
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  # #
8
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  # Morphomatics is distributed under the terms of the MIT License. #
9
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  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/metric.py RENAMED
@@ -3,7 +3,7 @@
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  # This file is part of the Morphomatics library #
4
4
  # see https://github.com/morphomatics/morphomatics #
5
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  # #
6
- # Copyright (C) 2025 Zuse Institute Berlin #
6
+ # Copyright (C) 2026 Zuse Institute Berlin #
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  # #
8
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  # Morphomatics is distributed under the terms of the MIT License. #
9
9
  # see $MORPHOMATICS/LICENSE #
{morphomatics-4.1.2 → morphomatics-4.2}/morphomatics/manifold/point_distribution_model.py RENAMED
@@ -3,7 +3,7 @@
3
3
  # This file is part of the Morphomatics library #
4
4
  # see https://github.com/morphomatics/morphomatics #
5
5
  # #
6
- # Copyright (C) 2025 Zuse Institute Berlin #
6
+ # Copyright (C) 2026 Zuse Institute Berlin #
7
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  # #
8
8
  # Morphomatics is distributed under the terms of the MIT License. #
9
9
  # see $MORPHOMATICS/LICENSE #