pylocuszoom 1.1.1__tar.gz → 1.1.2__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 (113) hide show
  1. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/CHANGELOG.md +7 -0
  2. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/PKG-INFO +6 -6
  3. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/README.md +5 -5
  4. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/pyproject.toml +1 -1
  5. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/__init__.py +1 -1
  6. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/uv.lock +1 -1
  7. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/.gitattributes +0 -0
  8. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/.github/ISSUE_TEMPLATE/bug_report.md +0 -0
  9. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/.github/ISSUE_TEMPLATE/config.yml +0 -0
  10. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/.github/ISSUE_TEMPLATE/feature_request.md +0 -0
  11. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/.github/workflows/ci.yml +0 -0
  12. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/.github/workflows/publish.yml +0 -0
  13. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/.gitignore +0 -0
  14. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/.pre-commit-config.yaml +0 -0
  15. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/CONTRIBUTING.md +0 -0
  16. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/LICENSE.md +0 -0
  17. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/bioconda/meta.yaml +0 -0
  18. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/docs/ARCHITECTURE.md +0 -0
  19. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/docs/CODEMAP.md +0 -0
  20. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/docs/USER_GUIDE.md +0 -0
  21. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/eqtl_bokeh.html +0 -0
  22. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/eqtl_overlay.png +0 -0
  23. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/eqtl_plotly.html +0 -0
  24. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/finemapping_bokeh.html +0 -0
  25. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/finemapping_plot.png +0 -0
  26. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/finemapping_plotly.html +0 -0
  27. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/forest_plot.png +0 -0
  28. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/generate_example_plots.py +0 -0
  29. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/getting_started.ipynb +0 -0
  30. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/manhattan_bokeh.html +0 -0
  31. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/manhattan_plot.png +0 -0
  32. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/manhattan_plotly.html +0 -0
  33. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/manhattan_qq_bokeh.html +0 -0
  34. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/manhattan_qq_canine.png +0 -0
  35. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/manhattan_qq_plotly.html +0 -0
  36. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/manhattan_qq_sidebyside.png +0 -0
  37. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/manhattan_qq_stacked.png +0 -0
  38. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/manhattan_qq_stacked_bokeh.html +0 -0
  39. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/manhattan_qq_stacked_plotly.html +0 -0
  40. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/manhattan_stacked.png +0 -0
  41. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/manhattan_stacked_bokeh.html +0 -0
  42. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/manhattan_stacked_plotly.html +0 -0
  43. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/phewas_plot.png +0 -0
  44. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/qq_bokeh.html +0 -0
  45. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/qq_plot.png +0 -0
  46. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/qq_plotly.html +0 -0
  47. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/regional_plot.png +0 -0
  48. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/regional_plot_with_recomb.png +0 -0
  49. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/regional_recomb_bokeh.html +0 -0
  50. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/regional_recomb_plotly.html +0 -0
  51. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/examples/stacked_plot.png +0 -0
  52. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/logo.svg +0 -0
  53. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/_plotter_utils.py +0 -0
  54. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/backends/__init__.py +0 -0
  55. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/backends/base.py +0 -0
  56. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/backends/bokeh_backend.py +0 -0
  57. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/backends/hover.py +0 -0
  58. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/backends/matplotlib_backend.py +0 -0
  59. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/backends/plotly_backend.py +0 -0
  60. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/colors.py +0 -0
  61. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/config.py +0 -0
  62. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/ensembl.py +0 -0
  63. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/eqtl.py +0 -0
  64. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/exceptions.py +0 -0
  65. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/finemapping.py +0 -0
  66. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/forest.py +0 -0
  67. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/gene_track.py +0 -0
  68. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/labels.py +0 -0
  69. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/ld.py +0 -0
  70. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/loaders.py +0 -0
  71. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/logging.py +0 -0
  72. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/manhattan.py +0 -0
  73. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/manhattan_plotter.py +0 -0
  74. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/phewas.py +0 -0
  75. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/plotter.py +0 -0
  76. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/py.typed +0 -0
  77. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/qq.py +0 -0
  78. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/recombination.py +0 -0
  79. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/reference_data/__init__.py +0 -0
  80. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/schemas.py +0 -0
  81. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/stats_plotter.py +0 -0
  82. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/utils.py +0 -0
  83. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/src/pylocuszoom/validation.py +0 -0
  84. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/conftest.py +0 -0
  85. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_backend_bugs.py +0 -0
  86. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_backends.py +0 -0
  87. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_colors.py +0 -0
  88. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_config.py +0 -0
  89. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_edge_cases.py +0 -0
  90. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_ensembl.py +0 -0
  91. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_ensembl_integration.py +0 -0
  92. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_eqtl.py +0 -0
  93. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_exceptions.py +0 -0
  94. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_finemapping.py +0 -0
  95. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_forest.py +0 -0
  96. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_gene_track.py +0 -0
  97. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_hover.py +0 -0
  98. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_labels.py +0 -0
  99. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_ld.py +0 -0
  100. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_loaders.py +0 -0
  101. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_logging.py +0 -0
  102. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_manhattan.py +0 -0
  103. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_manhattan_plotter.py +0 -0
  104. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_notebook_backends.py +0 -0
  105. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_phewas.py +0 -0
  106. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_plotter.py +0 -0
  107. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_plotter_manhattan_qq.py +0 -0
  108. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_plotter_utils.py +0 -0
  109. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_qq.py +0 -0
  110. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_recombination.py +0 -0
  111. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_stats_plotter.py +0 -0
  112. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_utils.py +0 -0
  113. {pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/tests/test_validation.py +0 -0
{pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/CHANGELOG.md RENAMED
@@ -5,6 +5,12 @@ All notable changes to this project will be documented in this file.
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  The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.1.0/),
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  and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
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+ ## [1.1.2] - 2026-01-30
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+ ### Fixed
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+ - README documentation links now work on PyPI (use absolute GitHub URLs)
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  ## [1.1.1] - 2026-01-30
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  ### Fixed
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  - bokeh >= 3.8.2
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  - kaleido >= 0.2.0
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+ [1.1.2]: https://github.com/michael-denyer/pyLocusZoom/compare/v1.1.1...v1.1.2
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  [1.1.1]: https://github.com/michael-denyer/pyLocusZoom/compare/v1.1.0...v1.1.1
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  [1.1.0]: https://github.com/michael-denyer/pyLocusZoom/compare/v1.0.2...v1.1.0
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  [1.0.2]: https://github.com/michael-denyer/pyLocusZoom/compare/v1.0.1...v1.0.2
{pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/PKG-INFO RENAMED
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  Metadata-Version: 2.4
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  Name: pylocuszoom
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- Version: 1.1.1
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+ Version: 1.1.2
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  Summary: Publication-ready regional association plots with LD coloring, gene tracks, and recombination overlays
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  Project-URL: Homepage, https://github.com/michael-denyer/pylocuszoom
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  Project-URL: Documentation, https://github.com/michael-denyer/pylocuszoom#readme
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  ## Documentation
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- - [User Guide](docs/USER_GUIDE.md) - Comprehensive documentation with API reference
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- - [Code Map](docs/CODEMAP.md) - Architecture diagram with source code links
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- - [Architecture](docs/ARCHITECTURE.md) - Design decisions and component overview
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- - [Example Notebook](examples/getting_started.ipynb) - Interactive tutorial
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- - [CHANGELOG](CHANGELOG.md) - Version history
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+ - [User Guide](https://github.com/michael-denyer/pyLocusZoom/blob/main/docs/USER_GUIDE.md) - Comprehensive documentation with API reference
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+ - [Code Map](https://github.com/michael-denyer/pyLocusZoom/blob/main/docs/CODEMAP.md) - Architecture diagram with source code links
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+ - [Architecture](https://github.com/michael-denyer/pyLocusZoom/blob/main/docs/ARCHITECTURE.md) - Design decisions and component overview
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+ - [Example Notebook](https://github.com/michael-denyer/pyLocusZoom/blob/main/examples/getting_started.ipynb) - Interactive tutorial
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+ - [CHANGELOG](https://github.com/michael-denyer/pyLocusZoom/blob/main/CHANGELOG.md) - Version history
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  ## License
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{pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/README.md RENAMED
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  ## Documentation
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- - [User Guide](docs/USER_GUIDE.md) - Comprehensive documentation with API reference
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- - [Code Map](docs/CODEMAP.md) - Architecture diagram with source code links
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- - [Architecture](docs/ARCHITECTURE.md) - Design decisions and component overview
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- - [Example Notebook](examples/getting_started.ipynb) - Interactive tutorial
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- - [CHANGELOG](CHANGELOG.md) - Version history
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+ - [User Guide](https://github.com/michael-denyer/pyLocusZoom/blob/main/docs/USER_GUIDE.md) - Comprehensive documentation with API reference
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+ - [Code Map](https://github.com/michael-denyer/pyLocusZoom/blob/main/docs/CODEMAP.md) - Architecture diagram with source code links
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+ - [Architecture](https://github.com/michael-denyer/pyLocusZoom/blob/main/docs/ARCHITECTURE.md) - Design decisions and component overview
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+ - [Example Notebook](https://github.com/michael-denyer/pyLocusZoom/blob/main/examples/getting_started.ipynb) - Interactive tutorial
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+ - [CHANGELOG](https://github.com/michael-denyer/pyLocusZoom/blob/main/CHANGELOG.md) - Version history
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  ## License
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{pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/pyproject.toml RENAMED
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  [project]
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  name = "pylocuszoom"
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- version = "1.1.1"
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  description = "Publication-ready regional association plots with LD coloring, gene tracks, and recombination overlays"
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  readme = "README.md"
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  license = "GPL-3.0-or-later"
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  - Custom: User provides all reference data
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  """
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  # Main plotter class
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  # Backend types
{pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/uv.lock RENAMED
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  name = "pylocuszoom"
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  source = { editable = "." }
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  dependencies = [
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  { name = "adjusttext" },
{pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/.gitattributes RENAMED
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{pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/.gitignore RENAMED
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{pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/CONTRIBUTING.md RENAMED
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{pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/LICENSE.md RENAMED
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{pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/docs/CODEMAP.md RENAMED
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{pylocuszoom-1.1.1 → pylocuszoom-1.1.2}/logo.svg RENAMED
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