ngio 0.2.0b3__py3-none-any.whl → 0.2.1__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 (30) hide show
  1. ngio/__init__.py +11 -9
  2. ngio/common/__init__.py +3 -3
  3. ngio/common/_array_pipe.py +7 -1
  4. ngio/common/_masking_roi.py +4 -4
  5. ngio/common/_roi.py +12 -12
  6. ngio/hcs/__init__.py +2 -2
  7. ngio/hcs/plate.py +86 -34
  8. ngio/images/__init__.py +7 -7
  9. ngio/images/abstract_image.py +20 -10
  10. ngio/images/create.py +4 -3
  11. ngio/images/image.py +2 -2
  12. ngio/images/label.py +10 -6
  13. ngio/images/masked_image.py +19 -5
  14. ngio/images/{omezarr_container.py → ome_zarr_container.py} +27 -30
  15. ngio/ome_zarr_meta/__init__.py +3 -0
  16. ngio/ome_zarr_meta/ngio_specs/__init__.py +2 -0
  17. ngio/ome_zarr_meta/ngio_specs/_ngio_hcs.py +5 -4
  18. ngio/ome_zarr_meta/ngio_specs/_ngio_image.py +9 -13
  19. ngio/ome_zarr_meta/v04/_v04_spec_utils.py +1 -2
  20. ngio/tables/__init__.py +2 -2
  21. ngio/tables/tables_container.py +3 -3
  22. ngio/tables/v1/__init__.py +2 -2
  23. ngio/tables/v1/_feature_table.py +20 -1
  24. ngio/tables/v1/_generic_table.py +10 -0
  25. ngio/tables/v1/_roi_table.py +35 -13
  26. {ngio-0.2.0b3.dist-info → ngio-0.2.1.dist-info}/METADATA +8 -5
  27. ngio-0.2.1.dist-info/RECORD +54 -0
  28. ngio-0.2.0b3.dist-info/RECORD +0 -54
  29. {ngio-0.2.0b3.dist-info → ngio-0.2.1.dist-info}/WHEEL +0 -0
  30. {ngio-0.2.0b3.dist-info → ngio-0.2.1.dist-info}/licenses/LICENSE +0 -0
{ngio-0.2.0b3.dist-info → ngio-0.2.1.dist-info}/METADATA RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.4
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  Name: ngio
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- Version: 0.2.0b3
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+ Version: 0.2.1
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  Summary: Next Generation file format IO
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  Project-URL: homepage, https://github.com/lorenzocerrone/ngio
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  Project-URL: repository, https://github.com/lorenzocerrone/ngio
@@ -41,6 +41,8 @@ Requires-Dist: rich; extra == 'dev'
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  Requires-Dist: ruff; extra == 'dev'
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  Requires-Dist: scikit-image; extra == 'dev'
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  Provides-Extra: docs
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+ Requires-Dist: markdown-exec[ansi]; extra == 'docs'
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+ Requires-Dist: matplotlib; extra == 'docs'
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  Requires-Dist: mike; extra == 'docs'
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  Requires-Dist: mkdocs; extra == 'docs'
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  Requires-Dist: mkdocs-autorefs; extra == 'docs'
@@ -49,7 +51,9 @@ Requires-Dist: mkdocs-git-revision-date-localized-plugin; extra == 'docs'
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  Requires-Dist: mkdocs-jupyter; extra == 'docs'
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  Requires-Dist: mkdocs-material; extra == 'docs'
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  Requires-Dist: mkdocstrings[python]; extra == 'docs'
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+ Requires-Dist: rich; extra == 'docs'
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  Requires-Dist: scikit-image; extra == 'docs'
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+ Requires-Dist: tabulate; extra == 'docs'
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  Provides-Extra: test
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  Requires-Dist: pytest; extra == 'test'
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  Requires-Dist: pytest-cov; extra == 'test'
@@ -69,9 +73,9 @@ NGIO is a Python library to streamline OME-Zarr image analysis workflows.
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  **Main Goals:**
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  - Abstract object base API for handling OME-Zarr files
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- - Powefull iterators for processing data using common access patterns
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+ - Powerful iterators for processing data using common access patterns
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  - Tight integration with [Fractal's Table Fractal](https://fractal-analytics-platform.github.io/fractal-tasks-core/tables/)
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- - Validate OME-Zarr files
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+ - Validation of OME-Zarr files
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  To get started, check out the [Getting Started](https://fractal-analytics-platform.github.io/ngio/getting-started/) guide. Or checkout our [Documentation](https://fractal-analytics-platform.github.io/ngio/)
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@@ -91,10 +95,9 @@ To get started, check out the [Getting Started](https://fractal-analytics-platfo
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  | Basic Iterators | Ongoing | End-September | Read and Write Iterators for common access patterns |
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  | Base Documentation | ✅ | End-September | API Documentation and Examples |
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  | Beta Ready Testing | ✅ | End-September | Beta Testing; Library is ready for testing, but the API is not stable |
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- | Streaming from Fractal | Ongoing | December | Ngio can stream ome-zarr from fractal |
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+ | Streaming from Fractal | Ongoing | December | Ngio can stream OME-Zarr from fractal |
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  | Mask Iterators | Ongoing | Early 2025 | Iterators over Masked Tables |
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  | Advanced Iterators | Not started | mid-2025 | Iterators for advanced access patterns |
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  | Parallel Iterators | Not started | mid-2025 | Concurrent Iterators for parallel read and write |
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  | Full Documentation | Not started | 2025 | Complete Documentation |
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  | Release 1.0 (Commitment to API) | Not started | 2025 | API is stable; breaking changes will be avoided |
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-
ngio-0.2.1.dist-info/RECORD ADDED
@@ -0,0 +1,54 @@
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+ ngio/__init__.py,sha256=KpQB2ZvLou_PLs6Q0JG7qeQ50kkEA5ddr7otAO4PCDM,1053
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+ ngio/common/__init__.py,sha256=tMKp1eZzGfpdKDkpfHn0iVzSO11dmp-RZARpuxoGGQk,1351
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+ ngio/common/_array_pipe.py,sha256=we3gZLhgUsiPQwPQqg_XVkyG_9EpQ2xoe0L_nOALDho,7828
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+ ngio/common/_axes_transforms.py,sha256=kWU0M5erNmgWBXdu5LNv-tLW3jqkT00MMYX7cz-kyHs,2035
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+ ngio/common/_common_types.py,sha256=OkAYNSNjZkixL1MI-HPBVuXamheFBr862uJ4PvTxmhk,129
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+ ngio/common/_dimensions.py,sha256=UV2XulWaROb3Y2f4fv27ZkTIu-MoS53U26aDkrv-_lk,3900
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+ ngio/common/_masking_roi.py,sha256=-o6meGP17iTXEbkO9aGh1VX2drkc2laIcRJvCy_pRRM,4919
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+ ngio/common/_pyramid.py,sha256=8xTFnrKcldYXSnBqcVtH1E6hzS9_et8NdoPo8zfTCjc,7308
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+ ngio/common/_roi.py,sha256=L2QVKGNkYC3E6rYlO82UilfF8AuWrwtCJIIptccp8H4,5096
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+ ngio/common/_slicer.py,sha256=AKpwXRncOmF9nhjKYma0C_41WqAgSv860beKGx-aw-0,3075
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+ ngio/common/_zoom.py,sha256=KsURa5VuixmpbAAY5-6obmuQV8vfiHKZqBxZDXvchpM,5473
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+ ngio/hcs/__init__.py,sha256=3cLg-R-a5bv-JCt9e_0a7vfUNbZKCPt0VYAm8qqSfh4,190
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+ ngio/hcs/plate.py,sha256=PEIs4Z1cwhFuopuyE5FvafUO213yH0xtmgu35u1JntY,14365
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+ ngio/images/__init__.py,sha256=DYbXAdBgPxyjBRdJrWvU0UnBRI0gUMmx9KaJ-Bucvz4,533
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+ ngio/images/abstract_image.py,sha256=ND3Kqfi-tKBVEKcSmEjOYMKhtrcILPC-L7MW2ktPqK0,9921
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+ ngio/images/create.py,sha256=UBEWj5leIeKyiSc86k-FCU2JpppEbVR6i5g5e3lKvXY,9805
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+ ngio/images/image.py,sha256=FlriIM-fxzJMW0Te6D0CfglO5-5rAeeegWFFl-rqDlg,15248
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+ ngio/images/label.py,sha256=12KoLkhr74jHg313KKjlhMHwWa-7zZJdb8wpJSCvarQ,9489
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+ ngio/images/masked_image.py,sha256=IBo8x2jHyXBXn7ORo8fSiwBPjV_1JOTb_vatjKNxbJ0,8531
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+ ngio/images/ome_zarr_container.py,sha256=pVhVaHQOyNK7SqPym1d8hLXsv6y3meDtKeEsQODiyn4,27419
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+ ngio/ome_zarr_meta/__init__.py,sha256=sDrVZRRL9cZCfLUwLoGV2behimsYXqY7oHHu5wCMvQ4,1130
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+ ngio/ome_zarr_meta/_meta_handlers.py,sha256=BLvYt5PONYrWkEb2XgEiAXR_OX9rfeX_C0eEqen0jQA,25549
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+ ngio/ome_zarr_meta/ngio_specs/__init__.py,sha256=ev8RPyx3MVaUghawnmU-gIm7Pr0jwb7-_w2OuuozYPw,1584
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+ ngio/ome_zarr_meta/ngio_specs/_axes.py,sha256=zgAE0-2DHzJfqGqBhyjY7y_6qAgDLdV9iuWz-YsHe9Y,16682
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+ ngio/ome_zarr_meta/ngio_specs/_channels.py,sha256=ufZuYuTO5PJA1vcBrNAcuZCMgIEwF57buPloTHIzB1Q,14082
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+ ngio/ome_zarr_meta/ngio_specs/_dataset.py,sha256=xT4GY2mdIsm6nAP8bXRj5E9-P6rS-iwzcXT_o3pZajo,4696
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+ ngio/ome_zarr_meta/ngio_specs/_ngio_hcs.py,sha256=M8kgNVUc7Ef5MOj9IR0eZhG_Tk7q4xf7-WknWvi-mzU,11709
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+ ngio/ome_zarr_meta/ngio_specs/_ngio_image.py,sha256=l0eQVavO8g1Amm7AjCP6CCSaPOOkKyfa_yb3pFef6WU,16743
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+ ngio/ome_zarr_meta/ngio_specs/_pixel_size.py,sha256=QZy94THDBkeLgOtN6o_jF3oXSewRxdM2E7ZTSBTo7RU,3878
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+ ngio/ome_zarr_meta/v04/__init__.py,sha256=dJRzzxyYc81kf-0Hip_bqvbdManaM8XTdQX2meWyCSs,583
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+ ngio/ome_zarr_meta/v04/_v04_spec_utils.py,sha256=rLPKeYkOYQDI2urSBGKfhi45angK0_QhdB_3LAYrN0o,15863
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+ ngio/tables/__init__.py,sha256=gxvNvAgLePgrngOm06H5qU50Axc6boeIs5iCfrmqTi0,609
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+ ngio/tables/_validators.py,sha256=RzF09YrlUSb-xdVlosuU-_BaLswtvhpduHfzLaWu2mY,6468
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+ ngio/tables/tables_container.py,sha256=elOTjpRuC_zsRuZmGeBWfMl2y6OLp2g6FmOe__xLsWE,9845
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+ ngio/tables/backends/__init__.py,sha256=NlOXmZXDA1kOCVONUyo_aqSjdMHmfqk-3xuKBLXpaUM,217
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+ ngio/tables/backends/_abstract_backend.py,sha256=JlaHqLjDm2uVnXFWxsHMojNeKo3leg6uauzoFMSF5O4,2256
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+ ngio/tables/backends/_anndata_utils.py,sha256=zo85K0bwgyQKBj8hQASfOSWugdd4BPUTyT6_tRO58fI,6917
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+ ngio/tables/backends/_anndata_v1.py,sha256=hhEwoBybWFDHqajOk_JEazniYmhAlCehOYTtmcYJfyY,2615
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+ ngio/tables/backends/_json_v1.py,sha256=9ZC0d_tMiiugm-VXDL3sRFfESzSnnY9kAtSxoXYV-dY,1910
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+ ngio/tables/backends/_table_backends.py,sha256=XXtnZqVDbMqFkbUkHbf9IBNz4teCouLpa5fWgEgVtfg,3269
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+ ngio/tables/v1/__init__.py,sha256=XWi6f_KbjbX45Ku-7uymJRSTVWyFAPAAEp_TXDeZV4s,314
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+ ngio/tables/v1/_feature_table.py,sha256=mR8BwvZfkUT42mQuS0KACW7fTqcsIl6Ckiwg-1UEGpY,5865
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+ ngio/tables/v1/_generic_table.py,sha256=jVW0vv0HMPXZjuP_uAvz-rPsvLQhjo3RfSa2Y9vdg1o,5679
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+ ngio/tables/v1/_roi_table.py,sha256=oE898CUh0ZbtnFXiM05T6VwTwRguv-aVYKkBmSx0Kj0,11296
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+ ngio/utils/__init__.py,sha256=r3nuLWgp6-cQlS4ODjYSBrfgdTLkCOVke9jKbn1NpkA,1129
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+ ngio/utils/_datasets.py,sha256=EdYJHIifpRou4f43dIuiKsdxe4K6FaeS4f1_e_EYrcI,1727
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+ ngio/utils/_errors.py,sha256=pKQ12LUjQLYE1nUawemA5h7HsgznjaSvV1n2PQU33N0,759
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+ ngio/utils/_fractal_fsspec_store.py,sha256=7qoGLiLi8JQFh9Ej_z5WNwQQuWrujb0f6p9nj8ocsS8,548
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+ ngio/utils/_logger.py,sha256=HIuqD_2ShfFGDswBddcouStbKfL0Vz_ah8cAIFGhbS8,888
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+ ngio/utils/_zarr_utils.py,sha256=r075cNpr-JHZ1PaDHX1KlENIGMvLf-WTTYwpODACWm4,12924
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+ ngio-0.2.1.dist-info/METADATA,sha256=MM8H2PMJSbt9QO6J7g4o2Q-_ieAKaYKIZA_SGiJ8_yw,5170
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+ ngio-0.2.1.dist-info/WHEEL,sha256=qtCwoSJWgHk21S1Kb4ihdzI2rlJ1ZKaIurTj_ngOhyQ,87
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+ ngio-0.2.1.dist-info/licenses/LICENSE,sha256=UgN_a1QCeNh9rZWfz-wORQFxE3elQzLWPQaoK6N6fxQ,1502
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+ ngio-0.2.1.dist-info/RECORD,,
ngio-0.2.0b3.dist-info/RECORD DELETED
@@ -1,54 +0,0 @@
1
- ngio/__init__.py,sha256=8-5UcDEIPVIM3mk4GqyBJNteQo0WZNOox1-F6UJoHjg,1001
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- ngio/common/__init__.py,sha256=4MLD3Xgr6-I6NwGoY7pa5qQfbfEobFCW3KvLybYcgOc,1373
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- ngio/common/_array_pipe.py,sha256=rZQMB3cgMSnpvZpLZEndNZVdWZIOMWgvYqeEOLz7XQ0,7576
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- ngio/common/_axes_transforms.py,sha256=kWU0M5erNmgWBXdu5LNv-tLW3jqkT00MMYX7cz-kyHs,2035
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- ngio/common/_common_types.py,sha256=OkAYNSNjZkixL1MI-HPBVuXamheFBr862uJ4PvTxmhk,129
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- ngio/common/_dimensions.py,sha256=UV2XulWaROb3Y2f4fv27ZkTIu-MoS53U26aDkrv-_lk,3900
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- ngio/common/_masking_roi.py,sha256=WSlFwoLH4Rjh0AJFFNa2FtFNfs5NB0exgzGb3Gy5K0s,4951
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- ngio/common/_pyramid.py,sha256=8xTFnrKcldYXSnBqcVtH1E6hzS9_et8NdoPo8zfTCjc,7308
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- ngio/common/_roi.py,sha256=PIxiMarPZwIjqcd1P4aUpwZttvaTQscqXOS7xJCxz7Y,5181
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- ngio/common/_slicer.py,sha256=AKpwXRncOmF9nhjKYma0C_41WqAgSv860beKGx-aw-0,3075
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- ngio/common/_zoom.py,sha256=KsURa5VuixmpbAAY5-6obmuQV8vfiHKZqBxZDXvchpM,5473
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- ngio/hcs/__init__.py,sha256=9YNmtHgCKhYSjmAE2-YVg5BycH-5cQGAE9xFrxxWo8c,188
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- ngio/hcs/plate.py,sha256=b-EHns-OGQF_RXEa-GDzP2TJFqpRFc0rBKdgf4l7MwU,12409
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- ngio/images/__init__.py,sha256=aijqG14eyqVgHtnlcKVNx37FRfT6QvKt8V6bwBpX_r8,526
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- ngio/images/abstract_image.py,sha256=UQpcp--SzJITIZfSg_KZWU9_mIC11LdHTuITJdxCNTE,9671
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- ngio/images/create.py,sha256=wQfoB9pmQkHFFYE3WNbhgQt36XhoTopGcPGcEXTNI-0,9764
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- ngio/images/image.py,sha256=BL9TINwYrT2_HdkhCKoRcfy7XqiiwEIVQvHDFkF8ZWc,15246
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- ngio/images/label.py,sha256=gvVuRUsrDBk-EpsuUMepC4M5hYPb5yTVvWwozaLM7-g,9333
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- ngio/images/masked_image.py,sha256=4YYVqf8OtIp-wWGVGUKMHMTqod4p4F7ZyWrsUIXMjEs,7905
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- ngio/images/omezarr_container.py,sha256=db5KnWAfWoaEekNmWxVQPAI3xXXeQGItQ3gvBbr55VA,27376
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- ngio/ome_zarr_meta/__init__.py,sha256=EfBX9ppb_wliSIcVb4NBDt3dFVldeIJ0h9tY9HELRY4,1075
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- ngio/ome_zarr_meta/_meta_handlers.py,sha256=BLvYt5PONYrWkEb2XgEiAXR_OX9rfeX_C0eEqen0jQA,25549
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- ngio/ome_zarr_meta/ngio_specs/__init__.py,sha256=ZpghXfbq0r-YJklD7J76BRMTlzEIAJFzneYlsosdyTY,1548
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- ngio/ome_zarr_meta/ngio_specs/_channels.py,sha256=ufZuYuTO5PJA1vcBrNAcuZCMgIEwF57buPloTHIzB1Q,14082
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- ngio/ome_zarr_meta/ngio_specs/_dataset.py,sha256=xT4GY2mdIsm6nAP8bXRj5E9-P6rS-iwzcXT_o3pZajo,4696
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- ngio/ome_zarr_meta/ngio_specs/_ngio_hcs.py,sha256=YQlobPYU7vbo9fShHQyCfzLlDUlP-mprAivay6W4-A0,11610
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- ngio/ome_zarr_meta/ngio_specs/_ngio_image.py,sha256=74L3ibo0SurKnbkxt0Re9jEVcLf63ZJouL2ZHpHZDbc,16776
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- ngio/ome_zarr_meta/ngio_specs/_pixel_size.py,sha256=QZy94THDBkeLgOtN6o_jF3oXSewRxdM2E7ZTSBTo7RU,3878
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- ngio/ome_zarr_meta/v04/__init__.py,sha256=dJRzzxyYc81kf-0Hip_bqvbdManaM8XTdQX2meWyCSs,583
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- ngio/ome_zarr_meta/v04/_v04_spec_utils.py,sha256=G4GGarkktjdsIzHUhaoZEL69-r-ZLpLz6y5TDVsN4W0,15939
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- ngio/tables/__init__.py,sha256=Mu3P8D-AtAxv9l4vUo-UJPfTYkgvB5A8qpOh3gMWX4E,609
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- ngio/tables/_validators.py,sha256=RzF09YrlUSb-xdVlosuU-_BaLswtvhpduHfzLaWu2mY,6468
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- ngio/tables/tables_container.py,sha256=FXp-s_zKqbMcBFh4515kbSdxYaFK1ULE2Pf0pzlnpEE,9845
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- ngio/tables/backends/__init__.py,sha256=NlOXmZXDA1kOCVONUyo_aqSjdMHmfqk-3xuKBLXpaUM,217
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- ngio/tables/backends/_anndata_utils.py,sha256=zo85K0bwgyQKBj8hQASfOSWugdd4BPUTyT6_tRO58fI,6917
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- ngio/tables/backends/_json_v1.py,sha256=9ZC0d_tMiiugm-VXDL3sRFfESzSnnY9kAtSxoXYV-dY,1910
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- ngio/tables/backends/_table_backends.py,sha256=XXtnZqVDbMqFkbUkHbf9IBNz4teCouLpa5fWgEgVtfg,3269
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- ngio/tables/v1/__init__.py,sha256=VtS1RUiPn_jHa__IUsGGzXSYsG0O1V0fpVR6xCOSFHY,314
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- ngio/tables/v1/_feature_table.py,sha256=yO1fWUfEM5nTSU6vx4QEwSY3MsgB8zZyr6Ui0fwc16w,5161
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- ngio/tables/v1/_generic_table.py,sha256=NcDWa6NI7LQplSVPOn0HG5CjrILTf0ZKZ1i_E-H5LJM,5279
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- ngio/tables/v1/_roi_table.py,sha256=GanlVPcmtFn5mzQYQi3-ldDLAdxPdC92NAvtvezp5Ps,10674
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- ngio/utils/__init__.py,sha256=r3nuLWgp6-cQlS4ODjYSBrfgdTLkCOVke9jKbn1NpkA,1129
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- ngio/utils/_datasets.py,sha256=EdYJHIifpRou4f43dIuiKsdxe4K6FaeS4f1_e_EYrcI,1727
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- ngio/utils/_errors.py,sha256=pKQ12LUjQLYE1nUawemA5h7HsgznjaSvV1n2PQU33N0,759
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- ngio/utils/_fractal_fsspec_store.py,sha256=7qoGLiLi8JQFh9Ej_z5WNwQQuWrujb0f6p9nj8ocsS8,548
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- ngio/utils/_logger.py,sha256=HIuqD_2ShfFGDswBddcouStbKfL0Vz_ah8cAIFGhbS8,888
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- ngio/utils/_zarr_utils.py,sha256=r075cNpr-JHZ1PaDHX1KlENIGMvLf-WTTYwpODACWm4,12924
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- ngio-0.2.0b3.dist-info/METADATA,sha256=hvC4PR-EEJBiDvSHl4Bq_0I924a0ifhf0r1vdVsiQ6k,4995
52
- ngio-0.2.0b3.dist-info/WHEEL,sha256=qtCwoSJWgHk21S1Kb4ihdzI2rlJ1ZKaIurTj_ngOhyQ,87
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- ngio-0.2.0b3.dist-info/licenses/LICENSE,sha256=UgN_a1QCeNh9rZWfz-wORQFxE3elQzLWPQaoK6N6fxQ,1502
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- ngio-0.2.0b3.dist-info/RECORD,,
{ngio-0.2.0b3.dist-info → ngio-0.2.1.dist-info}/WHEEL RENAMED
File without changes