Spacelab 0.28.0__py3-none-any.whl

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 (62) hide show
  1. spacelab/__init__.py +6 -0
  2. spacelab/__main__.py +3 -0
  3. spacelab/cli.py +97 -0
  4. spacelab/hlod/__init__.py +8 -0
  5. spacelab/hlod/__main__.py +5 -0
  6. spacelab/hlod/build.py +349 -0
  7. spacelab/hlod/cells.py +82 -0
  8. spacelab/hlod/cli.py +90 -0
  9. spacelab/hlod/hashing.py +38 -0
  10. spacelab/hlod/hilbert.py +91 -0
  11. spacelab/hlod/read.py +150 -0
  12. spacelab/hlod/verify.py +142 -0
  13. spacelab/prep_spatialdata.py +700 -0
  14. spacelab/server.py +130 -0
  15. spacelab/static/AI_lens_black.png +0 -0
  16. spacelab/static/ai-new-logo.png +0 -0
  17. spacelab/static/aifi_logo.png +0 -0
  18. spacelab/static/assets/AllenInstitutePlusText-Bold-DxLtQ4oE.woff2 +0 -0
  19. spacelab/static/assets/AllenInstitutePlusText-BoldItalic-mxzHQhQO.woff2 +0 -0
  20. spacelab/static/assets/AllenInstitutePlusText-Italic-CaKmxpsW.woff2 +0 -0
  21. spacelab/static/assets/AllenInstitutePlusText-Light-DUThXl1m.woff2 +0 -0
  22. spacelab/static/assets/AllenInstitutePlusText-LightItalic-CxfKknzG.woff2 +0 -0
  23. spacelab/static/assets/AllenInstitutePlusText-Regular-B0ryviHQ.woff2 +0 -0
  24. spacelab/static/assets/AllenInstitutePlusText-Semibold-3PoiDF1d.woff2 +0 -0
  25. spacelab/static/assets/AllenInstitutePlusText-SemiboldItalic-uXaVqnFo.woff2 +0 -0
  26. spacelab/static/assets/blosc-BKQbfHyB.js +18 -0
  27. spacelab/static/assets/blosc-j6ygecpn.js +18 -0
  28. spacelab/static/assets/chunk-INHXZS53-D3tQiqtZ.js +2 -0
  29. spacelab/static/assets/chunk-INHXZS53-QjxmivJp.js +2 -0
  30. spacelab/static/assets/deflate-BRVR_fNk.js +2 -0
  31. spacelab/static/assets/hlodTranscripts.worker-CjhNLk56.js +2 -0
  32. spacelab/static/assets/index-BT-mDgg2.js +5025 -0
  33. spacelab/static/assets/index-CNIqsj6m.css +1 -0
  34. spacelab/static/assets/jpeg-JUDfHHDo.js +2 -0
  35. spacelab/static/assets/lerc-CXQdKTps.js +2 -0
  36. spacelab/static/assets/lz4-C2MQfzIA.js +16 -0
  37. spacelab/static/assets/lz4-rzy_Siro.js +16 -0
  38. spacelab/static/assets/lzw-DBCCrYEo.js +2 -0
  39. spacelab/static/assets/packbits-LrtZ2mhj.js +2 -0
  40. spacelab/static/assets/pako.esm-C69tvH9t.js +2 -0
  41. spacelab/static/assets/polygons.worker-ClOPdWlW.js +2 -0
  42. spacelab/static/assets/raw-lPmjnySZ.js +2 -0
  43. spacelab/static/assets/spatialdataExpression.worker-D4W_OHS3.js +4 -0
  44. spacelab/static/assets/spatialdataShapes.worker-DQV1zeTt.js +974 -0
  45. spacelab/static/assets/spatialdataTranscripts.worker-DH9L-MwZ.js +974 -0
  46. spacelab/static/assets/transcripts.worker-CtxyO4n3.js +2 -0
  47. spacelab/static/assets/umap.worker-BPHuoLPV.js +2 -0
  48. spacelab/static/assets/webimage-xg0Pp5Jv.js +2 -0
  49. spacelab/static/assets/zstd-Cp7BEDDH.js +16 -0
  50. spacelab/static/assets/zstd-WlDjm0Vu.js +16 -0
  51. spacelab/static/blurred-bg.jpg +0 -0
  52. spacelab/static/favicon.ico +0 -0
  53. spacelab/static/index.html +22 -0
  54. spacelab/static/logo192.png +0 -0
  55. spacelab/static/logo512.png +0 -0
  56. spacelab/static/manifest.json +15 -0
  57. spacelab/static/robots.txt +3 -0
  58. spacelab-0.28.0.dist-info/METADATA +30 -0
  59. spacelab-0.28.0.dist-info/RECORD +62 -0
  60. spacelab-0.28.0.dist-info/WHEEL +4 -0
  61. spacelab-0.28.0.dist-info/entry_points.txt +2 -0
  62. spacelab-0.28.0.dist-info/licenses/LICENSE +21 -0
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+ <!DOCTYPE html>
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+ <html lang="en">
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+
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+ <head>
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+ <meta charset="utf-8" />
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+ <link rel="icon" href="AI_lens_black.png" />
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+ <meta name="viewport" content="width=device-width, initial-scale=1" />
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+ <meta name="theme-color" content="#000000" />
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+ <meta name="Spatial Explorer" content="allen institute/immunology/SpaceLab" />
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+ <link rel="apple-touch-icon" href="logo192.png" />
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+ <link rel="manifest" href="manifest.json" />
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+ <title>SpaceLab</title>
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+ <script type="module" crossorigin src="./assets/index-BT-mDgg2.js"></script>
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+ <link rel="stylesheet" crossorigin href="./assets/index-CNIqsj6m.css">
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+ </head>
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+
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+ <body>
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+ <noscript>You need to enable JavaScript to run this app.</noscript>
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+ <div id="root"></div>
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+ </body>
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+
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+ </html>
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+ {
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+ "short_name": "SpaceLab",
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+ "name": "Allen Institute for Immunology SpaceLab",
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+ "icons": [
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+ {
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+ "src": "aifi_logo.png",
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+ "sizes": "145x144",
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+ "type": "image/png"
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+ }
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+ ],
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+ "start_url": ".",
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+ "display": "standalone",
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+ "theme_color": "#000000",
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+ "background_color": "#ffffff"
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+ }
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+ # https://www.robotstxt.org/robotstxt.html
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+ User-agent: *
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+ Disallow:
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+ Metadata-Version: 2.5
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+ Name: Spacelab
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+ Version: 0.28.0
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+ Summary: Browser-based viewer for bioimaging data (spatial transcriptomics, multiplexed immunofluorescence).
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+ Project-URL: Repository, https://github.com/aifimmunology/Spacelab
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+ License-Expression: MIT
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+ License-File: LICENSE
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+ Keywords: spatial-transcriptomics,visualization,xenium,zarr
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+ Requires-Python: >=3.10
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+ Provides-Extra: hlod
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+ Requires-Dist: numpy>=1.26; extra == 'hlod'
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+ Requires-Dist: pyarrow>=14; extra == 'hlod'
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+ Requires-Dist: zarr>=3.1; (python_version >= '3.11') and extra == 'hlod'
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+ Description-Content-Type: text/markdown
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+
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+ # spacelab
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+
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+ Browser-based viewer for spatial transcriptomics data (Xenium, Atera, CellDIVE).
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+
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+ ```bash
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+ uvx spacelab /path/to/data_app_ready # or: pip install spacelab && spacelab
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+ ```
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+
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+ Run `spacelab` with no argument to serve the current directory. The directory must
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+ contain a `tissue-set-manifest.json` (the output of the conversion pipeline).
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+
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+ Options: `--port 3000`, `--host 127.0.0.1`, `--no-browser`.
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+
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+ See the [main repository](https://github.com/aifimmunology/Spacelab) for
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+ converting data.
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+ spacelab/static/aifi_logo.png,sha256=cgjJGsEV55Y7Gqhfmdn6bbMBevQwCVXr2Bb9-fpf5VM,4332
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+ spacelab-0.28.0.dist-info/licenses/LICENSE,sha256=kxCvi_I_IADI9ZocTq6xzum3ZEIUNMRJDtmrf6Z1M48,1072
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+ spacelab-0.28.0.dist-info/RECORD,,
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+ Wheel-Version: 1.0
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+ Generator: hatchling 1.33.0
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+ Root-Is-Purelib: true
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+ Tag: py3-none-any
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+ [console_scripts]
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+ spacelab = spacelab.cli:main
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+ MIT License
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+
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+ Copyright (c) 2025 Allen Institute
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+
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+ Permission is hereby granted, free of charge, to any person obtaining a copy
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+ of this software and associated documentation files (the "Software"), to deal
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+ in the Software without restriction, including without limitation the rights
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+ to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
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+ copies of the Software, and to permit persons to whom the Software is
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+ furnished to do so, subject to the following conditions:
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+
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+ The above copyright notice and this permission notice shall be included in all
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+ copies or substantial portions of the Software.
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+
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+ THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
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+ IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
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+ FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
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+ AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
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+ LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
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+ OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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+ SOFTWARE.