emmet-builders 0.84.3rc4__tar.gz → 0.84.4__tar.gz

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  1. emmet_builders-0.84.4/PKG-INFO +49 -0
  2. emmet_builders-0.84.4/emmet_builders.egg-info/PKG-INFO +49 -0
  3. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/requirements/ubuntu-latest_py3.10.txt +40 -29
  4. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/requirements/ubuntu-latest_py3.10_extras.txt +55 -42
  5. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/requirements/ubuntu-latest_py3.11.txt +39 -28
  6. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/requirements/ubuntu-latest_py3.11_extras.txt +53 -40
  7. emmet-builders-0.84.3rc4/PKG-INFO +0 -24
  8. emmet-builders-0.84.3rc4/emmet_builders.egg-info/PKG-INFO +0 -24
  9. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/MANIFEST.in +0 -0
  10. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/__init__.py +0 -0
  11. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/abinit/__init__.py +0 -0
  12. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/abinit/phonon.py +0 -0
  13. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/abinit/sound_velocity.py +0 -0
  14. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/feff/__init__.py +0 -0
  15. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/feff/xas.py +0 -0
  16. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/__init__.py +0 -0
  17. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/absorption_spectrum.py +0 -0
  18. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/alloys.py +0 -0
  19. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/basic_descriptors.py +0 -0
  20. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/bonds.py +0 -0
  21. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/chemenv.py +0 -0
  22. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/corrected_entries.py +0 -0
  23. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/dielectric.py +0 -0
  24. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/elasticity.py +0 -0
  25. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/electrodes.py +0 -0
  26. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/electronic_structure.py +0 -0
  27. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/magnetism.py +0 -0
  28. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/ml.py +0 -0
  29. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/optimade.py +0 -0
  30. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/oxidation_states.py +0 -0
  31. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/piezoelectric.py +0 -0
  32. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/provenance.py +0 -0
  33. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/robocrys.py +0 -0
  34. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/similarity.py +0 -0
  35. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/substrates.py +0 -0
  36. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/summary.py +0 -0
  37. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/materials/thermo.py +0 -0
  38. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/matscholar/missing_compositions.py +0 -0
  39. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/mobility/__init__.py +0 -0
  40. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/mobility/migration_graph.py +0 -0
  41. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/molecules/__init__.py +0 -0
  42. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/molecules/atomic.py +0 -0
  43. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/molecules/bonds.py +0 -0
  44. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/molecules/electric.py +0 -0
  45. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/molecules/metal_binding.py +0 -0
  46. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/molecules/orbitals.py +0 -0
  47. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/molecules/redox.py +0 -0
  48. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/molecules/summary.py +0 -0
  49. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/molecules/thermo.py +0 -0
  50. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/molecules/trajectory.py +0 -0
  51. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/molecules/vibration.py +0 -0
  52. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/qchem/__init__.py +0 -0
  53. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/qchem/molecules.py +0 -0
  54. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/settings.py +0 -0
  55. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/utils.py +0 -0
  56. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/vasp/__init__.py +0 -0
  57. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/vasp/materials.py +0 -0
  58. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/vasp/mp_potcar_stats.json.gz +0 -0
  59. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet/builders/vasp/task_validator.py +0 -0
  60. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet_builders.egg-info/SOURCES.txt +0 -0
  61. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet_builders.egg-info/dependency_links.txt +0 -0
  62. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet_builders.egg-info/not-zip-safe +0 -0
  63. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet_builders.egg-info/requires.txt +0 -0
  64. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/emmet_builders.egg-info/top_level.txt +0 -0
  65. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/requirements/deployment.txt +0 -0
  66. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/setup.cfg +0 -0
  67. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/setup.py +0 -0
  68. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/__init__.py +0 -0
  69. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/conftest.py +0 -0
  70. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/molecules/__init__.py +0 -0
  71. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/molecules/test_atomic.py +0 -0
  72. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/molecules/test_bonds.py +0 -0
  73. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/molecules/test_electric.py +0 -0
  74. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/molecules/test_metal_binding.py +0 -0
  75. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/molecules/test_orbitals.py +0 -0
  76. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/molecules/test_redox.py +0 -0
  77. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/molecules/test_summary.py +0 -0
  78. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/molecules/test_thermo.py +0 -0
  79. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/molecules/test_trajectory.py +0 -0
  80. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/molecules/test_vibration.py +0 -0
  81. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/test_absorption.py +0 -0
  82. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/test_basic_descriptors.py +0 -0
  83. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/test_chemenv.py +0 -0
  84. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/test_corrected_entries_thermo.py +0 -0
  85. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/test_dielectric.py +0 -0
  86. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/test_elasticity.py +0 -0
  87. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/test_electronic_structure.py +0 -0
  88. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/test_magnetism.py +0 -0
  89. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/test_materials.py +0 -0
  90. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/test_ml.py +0 -0
  91. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/test_mobility.py +0 -0
  92. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/test_oxidation.py +0 -0
  93. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/test_piezoelectric.py +0 -0
  94. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/test_qchem.py +0 -0
  95. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/test_similarity.py +0 -0
  96. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/test_summary.py +0 -0
  97. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/test_utils.py +0 -0
  98. {emmet-builders-0.84.3rc4 → emmet_builders-0.84.4}/tests/test_vasp.py +0 -0
@@ -0,0 +1,49 @@
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+ Metadata-Version: 2.1
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+ Name: emmet-builders
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+ Version: 0.84.4
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+ Summary: Builders for the Emmet Library
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+ Home-page: https://github.com/materialsproject/emmet
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+ Author: The Materials Project
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+ Author-email: feedback@materialsproject.org
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+ License: modified BSD
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+ Requires-Python: >=3.9
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+ Description-Content-Type: text/markdown
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+ Requires-Dist: emmet-core[all]
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+ Requires-Dist: maggma>=0.57.6
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+ Requires-Dist: matminer>=0.9.1
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+ Requires-Dist: solvation-analysis>=0.4.0
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+ Requires-Dist: MDAnalysis>=2.7.0
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+ Provides-Extra: test
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+ Requires-Dist: pre-commit; extra == "test"
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+ Requires-Dist: pytest; extra == "test"
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+ Requires-Dist: pytest-cov; extra == "test"
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+ Requires-Dist: pycodestyle; extra == "test"
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+ Requires-Dist: pydocstyle; extra == "test"
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+ Requires-Dist: flake8; extra == "test"
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+ Requires-Dist: mypy; extra == "test"
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+ Requires-Dist: mypy-extensions; extra == "test"
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+ Requires-Dist: types-setuptools; extra == "test"
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+ Requires-Dist: types-requests; extra == "test"
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+ Requires-Dist: wincertstore; extra == "test"
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+ Provides-Extra: docs
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+ Requires-Dist: mkdocs; extra == "docs"
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+ Requires-Dist: mkdocs-material<8.3; extra == "docs"
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+ Requires-Dist: mkdocs-material-extensions; extra == "docs"
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+ Requires-Dist: mkdocs-minify-plugin; extra == "docs"
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+ Requires-Dist: mkdocstrings; extra == "docs"
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+ Requires-Dist: mkdocs-awesome-pages-plugin; extra == "docs"
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+ Requires-Dist: mkdocs-markdownextradata-plugin; extra == "docs"
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+ Requires-Dist: mkdocstrings[python]; extra == "docs"
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+ Requires-Dist: livereload; extra == "docs"
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+ Requires-Dist: jinja2; extra == "docs"
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+ Provides-Extra: ml
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+ Requires-Dist: emmet-core[ml]; extra == "ml"
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+ Provides-Extra: openmm
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+ Requires-Dist: transport-analysis>=0.1.0; extra == "openmm"
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+
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+ # ![Emmet](docs/images/logo_w_text.svg)
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+
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+ [![Pytest Status](https://github.com/materialsproject/emmet/workflows/testing/badge.svg)](https://github.com/materialsproject/emmet/actions?query=workflow%3Atesting)
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+ [![Code Coverage](https://codecov.io/gh/materialsproject/emmet/branch/main/graph/badge.svg)](https://codecov.io/gh/materialsproject/emmet)
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+
49
+ The Materials API Toolkit for the Materials Project. Emmet defines the core models, data pipelines, the API server, and the convenience CLI.
@@ -0,0 +1,49 @@
1
+ Metadata-Version: 2.1
2
+ Name: emmet-builders
3
+ Version: 0.84.4
4
+ Summary: Builders for the Emmet Library
5
+ Home-page: https://github.com/materialsproject/emmet
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+ Author: The Materials Project
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+ Author-email: feedback@materialsproject.org
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+ License: modified BSD
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+ Requires-Python: >=3.9
10
+ Description-Content-Type: text/markdown
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+ Requires-Dist: emmet-core[all]
12
+ Requires-Dist: maggma>=0.57.6
13
+ Requires-Dist: matminer>=0.9.1
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+ Requires-Dist: solvation-analysis>=0.4.0
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+ Requires-Dist: MDAnalysis>=2.7.0
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+ Provides-Extra: test
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+ Requires-Dist: pre-commit; extra == "test"
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+ Requires-Dist: pytest; extra == "test"
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+ Requires-Dist: pytest-cov; extra == "test"
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+ Requires-Dist: pycodestyle; extra == "test"
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+ Requires-Dist: pydocstyle; extra == "test"
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+ Requires-Dist: flake8; extra == "test"
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+ Requires-Dist: mypy; extra == "test"
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+ Requires-Dist: mypy-extensions; extra == "test"
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+ Requires-Dist: types-setuptools; extra == "test"
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+ Requires-Dist: types-requests; extra == "test"
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+ Requires-Dist: wincertstore; extra == "test"
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+ Provides-Extra: docs
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+ Requires-Dist: mkdocs; extra == "docs"
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+ Requires-Dist: mkdocs-material<8.3; extra == "docs"
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+ Requires-Dist: mkdocs-material-extensions; extra == "docs"
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+ Requires-Dist: mkdocs-minify-plugin; extra == "docs"
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+ Requires-Dist: mkdocstrings; extra == "docs"
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+ Requires-Dist: mkdocs-awesome-pages-plugin; extra == "docs"
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+ Requires-Dist: mkdocs-markdownextradata-plugin; extra == "docs"
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+ Requires-Dist: mkdocstrings[python]; extra == "docs"
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+ Requires-Dist: livereload; extra == "docs"
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+ Requires-Dist: jinja2; extra == "docs"
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+ Provides-Extra: ml
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+ Requires-Dist: emmet-core[ml]; extra == "ml"
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+ Provides-Extra: openmm
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+ Requires-Dist: transport-analysis>=0.1.0; extra == "openmm"
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+
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+ # ![Emmet](docs/images/logo_w_text.svg)
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+
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+ [![Pytest Status](https://github.com/materialsproject/emmet/workflows/testing/badge.svg)](https://github.com/materialsproject/emmet/actions?query=workflow%3Atesting)
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+ [![Code Coverage](https://codecov.io/gh/materialsproject/emmet/branch/main/graph/badge.svg)](https://codecov.io/gh/materialsproject/emmet)
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+
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+ The Materials API Toolkit for the Materials Project. Emmet defines the core models, data pipelines, the API server, and the convenience CLI.
@@ -17,11 +17,11 @@ attrs==24.2.0
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  # jsonlines
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  # jsonschema
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  # referencing
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- bcrypt==4.2.0
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+ bcrypt==4.2.1
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  # via paramiko
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- boto3==1.35.57
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+ boto3==1.35.78
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  # via maggma
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- botocore==1.35.57
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+ botocore==1.35.78
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  # via
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  # boto3
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  # s3transfer
@@ -33,9 +33,9 @@ cffi==1.17.1
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  # pynacl
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  charset-normalizer==3.4.0
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  # via requests
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- contourpy==1.3.0
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+ contourpy==1.3.1
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  # via matplotlib
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- cryptography==43.0.3
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+ cryptography==44.0.0
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  # via paramiko
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  cycler==0.12.1
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  # via matplotlib
@@ -51,7 +51,7 @@ exceptiongroup==1.2.2
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  # via pytest
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  fasteners==0.19
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  # via mdanalysis
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- fonttools==4.54.1
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+ fonttools==4.55.3
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  # via matplotlib
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  griddataformats==1.0.2
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  # via mdanalysis
@@ -59,7 +59,7 @@ h5py==3.12.1
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  # via phonopy
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  idna==3.10
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  # via requests
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- imageio==2.36.0
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+ imageio==2.36.1
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  # via scikit-image
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  inflect==7.4.0
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  # via robocrys
@@ -98,26 +98,32 @@ matminer==0.9.3
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  # via
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  # emmet-builders (setup.py)
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  # robocrys
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- matplotlib==3.9.2
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+ matplotlib==3.9.3
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  # via
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  # ase
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  # mdanalysis
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+ # pathsimanalysis
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  # phonopy
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  # pymatgen
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  # seaborn
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  # solvation-analysis
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  mda-xdrlib==0.2.0
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  # via mdanalysis
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- mdanalysis==2.7.0
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+ mdahole2==0.5.0
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+ # via mdanalysis
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+ mdanalysis==2.8.0
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  # via
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  # emmet-builders (setup.py)
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  # emmet-core
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+ # mdahole2
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+ # pathsimanalysis
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  # solvation-analysis
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+ # waterdynamics
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  mmtf-python==1.1.3
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  # via mdanalysis
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- mongomock==4.2.0.post1
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+ mongomock==4.3.0
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  # via maggma
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- monty==2024.10.21
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+ monty==2024.12.10
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  # via
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  # emmet-core
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  # maggma
@@ -127,7 +133,7 @@ monty==2024.10.21
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  # robocrys
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  more-itertools==10.5.0
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  # via inflect
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- mp-api==0.42.2
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+ mp-api==0.43.0
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  # via robocrys
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  mp-pyrho==0.4.5
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  # via pymatgen-analysis-defects
@@ -160,6 +166,7 @@ numpy==1.26.4
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  # monty
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  # mrcfile
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  # pandas
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+ # pathsimanalysis
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  # patsy
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  # phonopy
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  # pymatgen
@@ -178,7 +185,8 @@ numpy==1.26.4
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  # statsmodels
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  # symfc
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  # tifffile
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- orjson==3.10.11
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+ # waterdynamics
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+ orjson==3.10.12
182
190
  # via maggma
183
191
  packaging==24.2
184
192
  # via
@@ -202,9 +210,11 @@ pandas==2.2.3
202
210
  # statsmodels
203
211
  paramiko==3.5.0
204
212
  # via sshtunnel
205
- patsy==0.5.6
213
+ pathsimanalysis==1.2.0
214
+ # via mdanalysis
215
+ patsy==1.0.1
206
216
  # via statsmodels
207
- phonopy==2.30.0
217
+ phonopy==2.32.0
208
218
  # via matcalc
209
219
  pillow==11.0.0
210
220
  # via
@@ -227,12 +237,12 @@ pybtex==0.24.0
227
237
  # robocrys
228
238
  pycparser==2.22
229
239
  # via cffi
230
- pydantic==2.9.2
240
+ pydantic==2.10.3
231
241
  # via
232
242
  # emmet-core
233
243
  # maggma
234
244
  # pydantic-settings
235
- pydantic-core==2.23.4
245
+ pydantic-core==2.27.1
236
246
  # via pydantic
237
247
  pydantic-settings==2.6.1
238
248
  # via
@@ -240,7 +250,7 @@ pydantic-settings==2.6.1
240
250
  # maggma
241
251
  pydash==8.0.4
242
252
  # via maggma
243
- pymatgen==2024.10.29
253
+ pymatgen==2024.11.13
244
254
  # via
245
255
  # emmet-core
246
256
  # matcalc
@@ -265,7 +275,7 @@ pynacl==1.5.0
265
275
  # via paramiko
266
276
  pyparsing==3.2.0
267
277
  # via matplotlib
268
- pytest==8.3.3
278
+ pytest==8.3.4
269
279
  # via solvation-analysis
270
280
  python-dateutil==2.9.0.post0
271
281
  # via
@@ -298,7 +308,7 @@ requests==2.32.3
298
308
  # pymatgen
299
309
  robocrys==0.2.10
300
310
  # via emmet-core
301
- rpds-py==0.21.0
311
+ rpds-py==0.22.3
302
312
  # via
303
313
  # jsonschema
304
314
  # referencing
@@ -310,18 +320,18 @@ ruamel-yaml==0.18.6
310
320
  # robocrys
311
321
  ruamel-yaml-clib==0.2.12
312
322
  # via ruamel-yaml
313
- s3transfer==0.10.3
323
+ s3transfer==0.10.4
314
324
  # via boto3
315
325
  scikit-image==0.24.0
316
326
  # via pymatgen-analysis-defects
317
- scikit-learn==1.5.2
327
+ scikit-learn==1.6.0
318
328
  # via matminer
319
329
  scipy==1.14.1
320
330
  # via
321
331
  # ase
322
332
  # griddataformats
323
333
  # mdanalysis
324
- # phonopy
334
+ # pathsimanalysis
325
335
  # pymatgen
326
336
  # robocrys
327
337
  # scikit-image
@@ -337,9 +347,8 @@ sentinels==1.0.0
337
347
  # via mongomock
338
348
  shapely==2.0.6
339
349
  # via pymatgen-analysis-alloys
340
- six==1.16.0
350
+ six==1.17.0
341
351
  # via
342
- # patsy
343
352
  # pybtex
344
353
  # python-dateutil
345
354
  smart-open==7.0.5
@@ -359,7 +368,7 @@ sshtunnel==0.4.0
359
368
  # via maggma
360
369
  statsmodels==0.14.4
361
370
  # via solvation-analysis
362
- symfc==1.1.5
371
+ symfc==1.1.6
363
372
  # via phonopy
364
373
  sympy==1.13.3
365
374
  # via
@@ -375,9 +384,9 @@ threadpoolctl==3.5.0
375
384
  # scikit-learn
376
385
  tifffile==2024.9.20
377
386
  # via scikit-image
378
- tomli==2.0.2
387
+ tomli==2.2.1
379
388
  # via pytest
380
- tqdm==4.67.0
389
+ tqdm==4.67.1
381
390
  # via
382
391
  # maggma
383
392
  # matminer
@@ -401,7 +410,9 @@ urllib3==2.2.3
401
410
  # via
402
411
  # botocore
403
412
  # requests
404
- wrapt==1.16.0
413
+ waterdynamics==1.2.0
414
+ # via mdanalysis
415
+ wrapt==1.17.0
405
416
  # via smart-open
406
417
 
407
418
  # The following packages are considered to be unsafe in a requirements file:
@@ -4,9 +4,9 @@
4
4
  #
5
5
  # pip-compile --all-extras --output-file=requirements/ubuntu-latest_py3.10_extras.txt
6
6
  #
7
- aiohappyeyeballs==2.4.3
7
+ aiohappyeyeballs==2.4.4
8
8
  # via aiohttp
9
- aiohttp==3.10.10
9
+ aiohttp==3.11.10
10
10
  # via fsspec
11
11
  aioitertools==0.12.0
12
12
  # via maggma
@@ -20,7 +20,7 @@ ase==3.23.0
20
20
  # matcalc
21
21
  # matgl
22
22
  # pymatgen-analysis-diffusion
23
- async-timeout==4.0.3
23
+ async-timeout==5.0.1
24
24
  # via aiohttp
25
25
  attrs==24.2.0
26
26
  # via
@@ -28,11 +28,11 @@ attrs==24.2.0
28
28
  # jsonlines
29
29
  # jsonschema
30
30
  # referencing
31
- bcrypt==4.2.0
31
+ bcrypt==4.2.1
32
32
  # via paramiko
33
- boto3==1.35.57
33
+ boto3==1.35.78
34
34
  # via maggma
35
- botocore==1.35.57
35
+ botocore==1.35.78
36
36
  # via
37
37
  # boto3
38
38
  # s3transfer
@@ -56,11 +56,11 @@ click==8.1.7
56
56
  # mkdocstrings
57
57
  colorama==0.4.6
58
58
  # via griffe
59
- contourpy==1.3.0
59
+ contourpy==1.3.1
60
60
  # via matplotlib
61
- coverage[toml]==7.6.4
61
+ coverage[toml]==7.6.9
62
62
  # via pytest-cov
63
- cryptography==43.0.3
63
+ cryptography==44.0.0
64
64
  # via paramiko
65
65
  csscompressor==0.9.5
66
66
  # via mkdocs-minify-plugin
@@ -93,7 +93,7 @@ filelock==3.16.1
93
93
  # virtualenv
94
94
  flake8==7.1.1
95
95
  # via emmet-builders (setup.py)
96
- fonttools==4.54.1
96
+ fonttools==4.55.3
97
97
  # via matplotlib
98
98
  frozenlist==1.5.0
99
99
  # via
@@ -114,13 +114,13 @@ h5py==3.12.1
114
114
  # via phonopy
115
115
  htmlmin2==0.1.13
116
116
  # via mkdocs-minify-plugin
117
- identify==2.6.2
117
+ identify==2.6.3
118
118
  # via pre-commit
119
119
  idna==3.10
120
120
  # via
121
121
  # requests
122
122
  # yarl
123
- imageio==2.36.0
123
+ imageio==2.36.1
124
124
  # via scikit-image
125
125
  inflect==7.4.0
126
126
  # via robocrys
@@ -160,7 +160,7 @@ lazy-loader==0.4
160
160
  # via scikit-image
161
161
  lightning==2.4.0
162
162
  # via matgl
163
- lightning-utilities==0.11.8
163
+ lightning-utilities==0.11.9
164
164
  # via
165
165
  # lightning
166
166
  # pytorch-lightning
@@ -192,10 +192,11 @@ matminer==0.9.3
192
192
  # via
193
193
  # emmet-builders (setup.py)
194
194
  # robocrys
195
- matplotlib==3.9.2
195
+ matplotlib==3.9.3
196
196
  # via
197
197
  # ase
198
198
  # mdanalysis
199
+ # pathsimanalysis
199
200
  # phonopy
200
201
  # pymatgen
201
202
  # seaborn
@@ -204,12 +205,17 @@ mccabe==0.7.0
204
205
  # via flake8
205
206
  mda-xdrlib==0.2.0
206
207
  # via mdanalysis
207
- mdanalysis==2.7.0
208
+ mdahole2==0.5.0
209
+ # via mdanalysis
210
+ mdanalysis==2.8.0
208
211
  # via
209
212
  # emmet-builders (setup.py)
210
213
  # emmet-core
214
+ # mdahole2
215
+ # pathsimanalysis
211
216
  # solvation-analysis
212
217
  # transport-analysis
218
+ # waterdynamics
213
219
  mergedeep==1.3.4
214
220
  # via
215
221
  # mkdocs
@@ -249,9 +255,9 @@ mkdocstrings-python==1.12.2
249
255
  # via mkdocstrings
250
256
  mmtf-python==1.1.3
251
257
  # via mdanalysis
252
- mongomock==4.2.0.post1
258
+ mongomock==4.3.0
253
259
  # via maggma
254
- monty==2024.10.21
260
+ monty==2024.12.10
255
261
  # via
256
262
  # emmet-core
257
263
  # maggma
@@ -261,7 +267,7 @@ monty==2024.10.21
261
267
  # robocrys
262
268
  more-itertools==10.5.0
263
269
  # via inflect
264
- mp-api==0.42.2
270
+ mp-api==0.43.0
265
271
  # via robocrys
266
272
  mp-pyrho==0.4.5
267
273
  # via pymatgen-analysis-defects
@@ -312,6 +318,7 @@ numpy==1.26.4
312
318
  # monty
313
319
  # mrcfile
314
320
  # pandas
321
+ # pathsimanalysis
315
322
  # patsy
316
323
  # phonopy
317
324
  # pymatgen
@@ -332,6 +339,7 @@ numpy==1.26.4
332
339
  # tidynamics
333
340
  # tifffile
334
341
  # torchmetrics
342
+ # waterdynamics
335
343
  nvidia-cublas-cu12==12.4.5.8
336
344
  # via
337
345
  # nvidia-cudnn-cu12
@@ -366,7 +374,7 @@ nvidia-nvjitlink-cu12==12.4.127
366
374
  # torch
367
375
  nvidia-nvtx-cu12==12.4.127
368
376
  # via torch
369
- orjson==3.10.11
377
+ orjson==3.10.12
370
378
  # via maggma
371
379
  packaging==24.2
372
380
  # via
@@ -395,11 +403,13 @@ pandas==2.2.3
395
403
  # statsmodels
396
404
  paramiko==3.5.0
397
405
  # via sshtunnel
406
+ pathsimanalysis==1.2.0
407
+ # via mdanalysis
398
408
  pathspec==0.12.1
399
409
  # via mkdocs
400
- patsy==0.5.6
410
+ patsy==1.0.1
401
411
  # via statsmodels
402
- phonopy==2.30.0
412
+ phonopy==2.32.0
403
413
  # via matcalc
404
414
  pillow==11.0.0
405
415
  # via
@@ -420,8 +430,10 @@ pluggy==1.5.0
420
430
  # via pytest
421
431
  pre-commit==4.0.1
422
432
  # via emmet-builders (setup.py)
423
- propcache==0.2.0
424
- # via yarl
433
+ propcache==0.2.1
434
+ # via
435
+ # aiohttp
436
+ # yarl
425
437
  psutil==6.1.0
426
438
  # via dgl
427
439
  pubchempy==1.0.4
@@ -437,13 +449,13 @@ pycodestyle==2.12.1
437
449
  # flake8
438
450
  pycparser==2.22
439
451
  # via cffi
440
- pydantic==2.9.2
452
+ pydantic==2.10.3
441
453
  # via
442
454
  # emmet-core
443
455
  # maggma
444
456
  # matgl
445
457
  # pydantic-settings
446
- pydantic-core==2.23.4
458
+ pydantic-core==2.27.1
447
459
  # via pydantic
448
460
  pydantic-settings==2.6.1
449
461
  # via
@@ -457,7 +469,7 @@ pyflakes==3.2.0
457
469
  # via flake8
458
470
  pygments==2.18.0
459
471
  # via mkdocs-material
460
- pymatgen==2024.10.29
472
+ pymatgen==2024.11.13
461
473
  # via
462
474
  # chgnet
463
475
  # emmet-core
@@ -488,7 +500,7 @@ pynacl==1.5.0
488
500
  # via paramiko
489
501
  pyparsing==3.2.0
490
502
  # via matplotlib
491
- pytest==8.3.3
503
+ pytest==8.3.4
492
504
  # via
493
505
  # emmet-builders (setup.py)
494
506
  # pytest-cov
@@ -541,7 +553,7 @@ requests==2.32.3
541
553
  # torchdata
542
554
  robocrys==0.2.10
543
555
  # via emmet-core
544
- rpds-py==0.21.0
556
+ rpds-py==0.22.3
545
557
  # via
546
558
  # jsonschema
547
559
  # referencing
@@ -553,11 +565,11 @@ ruamel-yaml==0.18.6
553
565
  # robocrys
554
566
  ruamel-yaml-clib==0.2.12
555
567
  # via ruamel-yaml
556
- s3transfer==0.10.3
568
+ s3transfer==0.10.4
557
569
  # via boto3
558
570
  scikit-image==0.24.0
559
571
  # via pymatgen-analysis-defects
560
- scikit-learn==1.5.2
572
+ scikit-learn==1.6.0
561
573
  # via matminer
562
574
  scipy==1.14.1
563
575
  # via
@@ -565,7 +577,7 @@ scipy==1.14.1
565
577
  # dgl
566
578
  # griddataformats
567
579
  # mdanalysis
568
- # phonopy
580
+ # pathsimanalysis
569
581
  # pymatgen
570
582
  # robocrys
571
583
  # scikit-image
@@ -581,9 +593,8 @@ sentinels==1.0.0
581
593
  # via mongomock
582
594
  shapely==2.0.6
583
595
  # via pymatgen-analysis-alloys
584
- six==1.16.0
596
+ six==1.17.0
585
597
  # via
586
- # patsy
587
598
  # pybtex
588
599
  # python-dateutil
589
600
  smart-open==7.0.5
@@ -605,7 +616,7 @@ sshtunnel==0.4.0
605
616
  # via maggma
606
617
  statsmodels==0.14.4
607
618
  # via solvation-analysis
608
- symfc==1.1.5
619
+ symfc==1.1.6
609
620
  # via phonopy
610
621
  sympy==1.13.1
611
622
  # via
@@ -624,7 +635,7 @@ tidynamics==1.1.2
624
635
  # via transport-analysis
625
636
  tifffile==2024.9.20
626
637
  # via scikit-image
627
- tomli==2.0.2
638
+ tomli==2.2.1
628
639
  # via
629
640
  # coverage
630
641
  # mypy
@@ -641,13 +652,13 @@ torchdata==0.7.1
641
652
  # via
642
653
  # dgl
643
654
  # matgl
644
- torchmetrics==1.5.2
655
+ torchmetrics==1.6.0
645
656
  # via
646
657
  # lightning
647
658
  # pytorch-lightning
648
- tornado==6.4.1
659
+ tornado==6.4.2
649
660
  # via livereload
650
- tqdm==4.67.0
661
+ tqdm==4.67.1
651
662
  # via
652
663
  # dgl
653
664
  # lightning
@@ -664,7 +675,7 @@ typeguard==4.4.1
664
675
  # via inflect
665
676
  types-requests==2.32.0.20241016
666
677
  # via emmet-builders (setup.py)
667
- types-setuptools==75.3.0.20241107
678
+ types-setuptools==75.6.0.20241126
668
679
  # via emmet-builders (setup.py)
669
680
  typing-extensions==4.12.2
670
681
  # via
@@ -691,17 +702,19 @@ urllib3==2.2.3
691
702
  # requests
692
703
  # torchdata
693
704
  # types-requests
694
- virtualenv==20.27.1
705
+ virtualenv==20.28.0
695
706
  # via pre-commit
696
707
  watchdog==6.0.0
697
708
  # via mkdocs
709
+ waterdynamics==1.2.0
710
+ # via mdanalysis
698
711
  wcmatch==10.0
699
712
  # via mkdocs-awesome-pages-plugin
700
713
  wincertstore==0.2.1
701
714
  # via emmet-builders (setup.py)
702
- wrapt==1.16.0
715
+ wrapt==1.17.0
703
716
  # via smart-open
704
- yarl==1.17.1
717
+ yarl==1.18.3
705
718
  # via aiohttp
706
719
 
707
720
  # The following packages are considered to be unsafe in a requirements file: