ngio 0.4.8__py3-none-any.whl → 0.5.0__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 (56) hide show
  1. ngio/__init__.py +5 -2
  2. ngio/common/__init__.py +11 -6
  3. ngio/common/_masking_roi.py +34 -54
  4. ngio/common/_pyramid.py +322 -75
  5. ngio/common/_roi.py +258 -330
  6. ngio/experimental/iterators/_feature.py +3 -3
  7. ngio/experimental/iterators/_rois_utils.py +10 -11
  8. ngio/hcs/_plate.py +192 -136
  9. ngio/images/_abstract_image.py +539 -35
  10. ngio/images/_create_synt_container.py +45 -47
  11. ngio/images/_create_utils.py +406 -0
  12. ngio/images/_image.py +524 -248
  13. ngio/images/_label.py +257 -180
  14. ngio/images/_masked_image.py +2 -2
  15. ngio/images/_ome_zarr_container.py +658 -255
  16. ngio/io_pipes/_io_pipes.py +9 -9
  17. ngio/io_pipes/_io_pipes_masked.py +7 -7
  18. ngio/io_pipes/_io_pipes_roi.py +6 -6
  19. ngio/io_pipes/_io_pipes_types.py +3 -3
  20. ngio/io_pipes/_match_shape.py +6 -8
  21. ngio/io_pipes/_ops_slices_utils.py +8 -5
  22. ngio/ome_zarr_meta/__init__.py +29 -18
  23. ngio/ome_zarr_meta/_meta_handlers.py +402 -689
  24. ngio/ome_zarr_meta/ngio_specs/__init__.py +4 -0
  25. ngio/ome_zarr_meta/ngio_specs/_axes.py +152 -51
  26. ngio/ome_zarr_meta/ngio_specs/_dataset.py +13 -22
  27. ngio/ome_zarr_meta/ngio_specs/_ngio_hcs.py +129 -91
  28. ngio/ome_zarr_meta/ngio_specs/_ngio_image.py +69 -69
  29. ngio/ome_zarr_meta/v04/__init__.py +5 -1
  30. ngio/ome_zarr_meta/v04/{_v04_spec_utils.py → _v04_spec.py} +55 -86
  31. ngio/ome_zarr_meta/v05/__init__.py +27 -0
  32. ngio/ome_zarr_meta/v05/_custom_models.py +18 -0
  33. ngio/ome_zarr_meta/v05/_v05_spec.py +495 -0
  34. ngio/resources/__init__.py +1 -1
  35. ngio/resources/resource_model.py +1 -1
  36. ngio/tables/_tables_container.py +82 -24
  37. ngio/tables/backends/_abstract_backend.py +7 -0
  38. ngio/tables/backends/_anndata.py +60 -7
  39. ngio/tables/backends/_anndata_utils.py +2 -4
  40. ngio/tables/backends/_csv.py +3 -19
  41. ngio/tables/backends/_json.py +10 -13
  42. ngio/tables/backends/_parquet.py +3 -31
  43. ngio/tables/backends/_py_arrow_backends.py +222 -0
  44. ngio/tables/backends/_utils.py +1 -1
  45. ngio/tables/v1/_roi_table.py +41 -24
  46. ngio/utils/__init__.py +8 -12
  47. ngio/utils/_cache.py +48 -0
  48. ngio/utils/_zarr_utils.py +354 -236
  49. {ngio-0.4.8.dist-info → ngio-0.5.0.dist-info}/METADATA +12 -5
  50. ngio-0.5.0.dist-info/RECORD +88 -0
  51. ngio/images/_create.py +0 -276
  52. ngio/tables/backends/_non_zarr_backends.py +0 -196
  53. ngio/utils/_logger.py +0 -50
  54. ngio-0.4.8.dist-info/RECORD +0 -85
  55. {ngio-0.4.8.dist-info → ngio-0.5.0.dist-info}/WHEEL +0 -0
  56. {ngio-0.4.8.dist-info → ngio-0.5.0.dist-info}/licenses/LICENSE +0 -0
ngio-0.4.8.dist-info/RECORD DELETED
@@ -1,85 +0,0 @@
1
- ngio/__init__.py,sha256=rEgnXuU6TCejUUGsxt4eKmjMhxjYh0fYBxWF4o5YjbE,1435
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- ngio/common/__init__.py,sha256=aPSuUbdGryrxbnlWrsVNe3LZoBAWC4GijR1BNH1UwuU,612
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- ngio/common/_dimensions.py,sha256=w8PYgyWxA8hgJETjFbw5CXf7WrasCL5FbzgfL1in86M,11361
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- ngio/common/_masking_roi.py,sha256=ZZTXordEZoq_ADk0OzADvq-5dPOwUBSuNobzFR8fpTw,5697
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- ngio/common/_pyramid.py,sha256=Wxj8RXSWWEPm5ILqvga484Hd2j3IQ4tGzHZsL5WSOuo,8446
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- ngio/common/_roi.py,sha256=9fKFTHoUiP0xmxvQiFkNmIuwWg3bFuRaAx-froCSqvA,11487
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- ngio/common/_synt_images_utils.py,sha256=B6uYOW1NyrM06YMR-csca3_YnAAkPRTbvnbLdy9tk9E,3188
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- ngio/common/_zoom.py,sha256=U01c-vqXjzZkrpd9Yvs24frVfTls_xPJeeaFCGmUwYI,6727
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- ngio/experimental/__init__.py,sha256=3pmBtHi-i8bKjTsvrOJM56ZyRX3Pv_dceCdt88-8COQ,147
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- ngio/experimental/iterators/__init__.py,sha256=TECOMGb5PEEZ0yXxt8pqIGvLKG41g_L1fTJU-zGPeV8,488
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- ngio/experimental/iterators/_abstract_iterator.py,sha256=7aAoMI-6vYGCMKxO3M10WpuBMTdqX4zr0K-TutAOp88,13195
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- ngio/experimental/iterators/_feature.py,sha256=g03yHIzYpTVeD3KUq2a4TwX29Dt48XaaGdZNSykYy7M,6749
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- ngio/experimental/iterators/_image_processing.py,sha256=cM7sL7xgdcjSOKAu-6367Aov89o6wgiJ_wqCGkU2Bsw,5091
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- ngio/experimental/iterators/_mappers.py,sha256=VVVsjems57wJUnWeufUFcgqa23k7VPeFL4Nc04HVw4o,1399
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- ngio/experimental/iterators/_rois_utils.py,sha256=Q-8lQ26neYn63h_RvfypYqvrq2UUN2O3xqVe57k_ufU,4363
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- ngio/experimental/iterators/_segmentation.py,sha256=xzotGvTn04HPeMeXZ_URnQqWco6d2lH6Ng6vkCUh9NM,9153
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- ngio/hcs/__init__.py,sha256=G8j9vD-liLeB_UeGtKYIgshWvJnUA6ks9GwjvWBLdHs,357
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- ngio/hcs/_plate.py,sha256=qfRwbCKaoz_AWTi8RDFFwOxy5geSknfJrPcqFVno9zI,44288
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- ngio/images/__init__.py,sha256=9Whvt7GTiCgT_vXaEEqGnDaY1-UsRk3dhLTv091F_g4,1211
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- ngio/images/_abstract_image.py,sha256=hrB9xn4MFRxnxE1d7HKnM8SXVPUGhMD9u32yBHTsFiU,18517
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- ngio/images/_create.py,sha256=61cuco2jUK25WzOY-Sel9s931FtGPL2ut25L9W10bJ4,10171
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- ngio/images/_create_synt_container.py,sha256=il_rr5_2KIQ5Xsskj2rb2fEm100ZErZq89aW06kn_7k,5444
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- ngio/images/_image.py,sha256=aMJb-YDghbZIHfSzY8ZoTmScEOqNfWQzJFO2AoMCdF4,33053
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- ngio/images/_label.py,sha256=Se3ZpgXDArtLHPlx9pw8Rnr5pZ_sEkmbeMh9sU63ncg,11799
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- ngio/images/_masked_image.py,sha256=YhbBzgPZMav6rX0WYue1BaxAzEIsfaQrxUIOK6ZWZcw,18848
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- ngio/images/_ome_zarr_container.py,sha256=UJERXEgBkwclpLaHzWqUIQc6P-TG4zYuKuxPukJGa4Y,38433
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- ngio/images/_table_ops.py,sha256=jFv_AMqoB4JBpoWsMtZppZVW7dAOC_u-JpfNm8b33kY,15292
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- ngio/io_pipes/__init__.py,sha256=arW_7GWzZs82kPNKdm_6B1sIDFV0lWwp-ZaORr9Q1FQ,2412
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- ngio/io_pipes/_io_pipes.py,sha256=KuwMYofE11EKx0iplWXBQZ-eE1A9YpGDprWh98cUlAI,10710
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- ngio/io_pipes/_io_pipes_masked.py,sha256=077j1XNgyCNOHlOsbjPOWcLtb2ccFvbLp-cPzWL1j3c,16999
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- ngio/io_pipes/_io_pipes_roi.py,sha256=cu_vd4MTDuyiabCWQ5ieMLI4v3tu_twSEe4X5-3bp84,4543
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- ngio/io_pipes/_io_pipes_types.py,sha256=xCeUd9rZe2wsgoZR1pUq6L4LSeawoPsb-9pmz5C6ztA,1393
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- ngio/io_pipes/_match_shape.py,sha256=eDy_Eqzld08m9zDuIjAvJnIhWh_HVjQS-5Pw9BMjdbw,13200
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- ngio/io_pipes/_ops_axes.py,sha256=Geg4ZXxB0njWWopX9YeiwRJJ9Ef2GKfG0NIUafOmi2c,10043
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- ngio/io_pipes/_ops_slices.py,sha256=hHMIOQ_niUSK9uFl8P2-10dP_K4GX3Do6vivN4fGRE0,14520
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- ngio/io_pipes/_ops_slices_utils.py,sha256=xjDaCVGmtME5Q0XSmGrY3nUKYgw5jOBQZW4YDq5s4vE,6580
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- ngio/io_pipes/_ops_transforms.py,sha256=uITs6v6sZ7DQ_Hpw3JdX8MuPOzir-bihvGzY84Qn4wY,2934
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- ngio/io_pipes/_zoom_transform.py,sha256=WBY1tO6_Qhf8FaDujfTdipuuqFf7PSi204wx5VKKs88,6884
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- ngio/ome_zarr_meta/__init__.py,sha256=tzxW2oVhfeMBVuv3XkcbOLzMnbDvUnie-AVsvSxRkdE,1265
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- ngio/ome_zarr_meta/_meta_handlers.py,sha256=ctknNDT8jxwyvxQf9on5gW31H1tRRsnneO38GT2UXoE,25880
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- ngio/ome_zarr_meta/ngio_specs/__init__.py,sha256=U2FqZR91Ob2N6CqKdyw-_Ll-wMgmGuPZGVRCr6wuRFY,1698
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- ngio/ome_zarr_meta/ngio_specs/_axes.py,sha256=gNzxCddn53m9dlNJlV5CL-aQS-nGJrbCDGfAp5L97LY,16412
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- ngio/ome_zarr_meta/ngio_specs/_channels.py,sha256=TDxIy-yVc2YaWPIFJRYnYwZbA8O5Ee_OiWppHYrEdpU,16647
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- ngio/ome_zarr_meta/ngio_specs/_dataset.py,sha256=CrHnjVWBGYPqErKkHR-E2DKrE3DmGznXMkd3Y9Z4uYo,3434
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- ngio/ome_zarr_meta/ngio_specs/_ngio_hcs.py,sha256=N1CGPOubwf0pvm8tiTnh-C1cOu9lToyDe3WagnEnPN4,17207
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- ngio/ome_zarr_meta/ngio_specs/_ngio_image.py,sha256=XmqeffYRspBZmv8gCrfJvnykmBViWgDo2AtJJkR7OEs,15886
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- ngio/ome_zarr_meta/ngio_specs/_pixel_size.py,sha256=4VF1djY9T5tp6GCJXppFrUJwALI1XgIm0imoM5rNvdE,3876
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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/_custom_models.py,sha256=5GxiDERvLuvq4QvApcA6EiKLS6hLFX1R0R_9rSaa85A,530
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- ngio/ome_zarr_meta/v04/_v04_spec_utils.py,sha256=OFMAKYvjhgCRhN_RNs8mJmOtyFHuw3k-lqOOrTRXvzU,15764
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- ngio/resources/__init__.py,sha256=4E4TXTNYEgRHt26C1XcC4pPobJJsmZRYm1Ml4uAuAkE,1664
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- ngio/resources/resource_model.py,sha256=eE1m0dyk-2psPC4X8Ifyan524QHUOd52TEQdvoU0m8I,861
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- ngio/resources/20200812-CardiomyocyteDifferentiation14-Cycle1_B03/mask.png,sha256=g3QmxQdmeciAtBe5cTCRfR6yw3keG9cBYfjizMo6EGo,11890
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- ngio/resources/20200812-CardiomyocyteDifferentiation14-Cycle1_B03/nuclei.png,sha256=Yw0k5pn2EHDMWTwyb7N51NX7WVk6-MlwfP9WZrhY-Ic,19446
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- ngio/resources/20200812-CardiomyocyteDifferentiation14-Cycle1_B03/raw.jpg,sha256=82lejQAIokj5w9g-qqhysDTWpHtNvJTkdURG_BjqIxQ,37743
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- ngio/tables/__init__.py,sha256=_BV3sclNMLITu_J8_3DkkUrCB6Kro0HzeWLDCD1ivKM,877
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- ngio/tables/_abstract_table.py,sha256=rwGa47TzbFmosucBWVfFq6JEXtgGvOdUVtU9DIelV88,8204
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- ngio/tables/_tables_container.py,sha256=jB3iVlUnJdMIBUqfuZDtPkiEI9haL19Bz-QfJ0BUwl4,12176
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- ngio/tables/backends/__init__.py,sha256=MwSRXNF1rWQBFOTDA_vT3oGoNZpviVgytsL5Txnu08I,1619
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- ngio/tables/backends/_abstract_backend.py,sha256=54Vh9yPfLx1NixGVfFkW4msD51nsim0zIfHRnO80Xt8,7276
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- ngio/tables/backends/_anndata.py,sha256=97RWG4Hjc42JBxm-YxjHEU8HHd14NiayelKlI1PTsCo,2868
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- ngio/tables/backends/_anndata_utils.py,sha256=HsmP27fm7JW1kjahl4lUnnViK_iqmu2bnsu86z43U98,3116
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- ngio/tables/backends/_csv.py,sha256=Ev61D-AUKo4LIhXRmWPJgYbHI7eQdxiajQR574DevEM,932
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- ngio/tables/backends/_json.py,sha256=1ZsEuXDJm1rOZV_KjFm8CB0qhv7L1W7L2EGWPf4q_p0,3137
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- ngio/tables/backends/_non_zarr_backends.py,sha256=BybUl800pqCdqJJmsGnUi4jsH1ibpQSUl0ZnumkFDwY,7298
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- ngio/tables/backends/_parquet.py,sha256=ic-p86h8lce8q9luBJGRzy6vxlWyJvA0-2l5cUD6OqY,1398
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- ngio/tables/backends/_table_backends.py,sha256=ksP2NAosXZkNMZf-IMrLx7bjQgp_eKfvPYK4vMdT1A8,7250
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- ngio/tables/backends/_utils.py,sha256=YFB7u2_l8lLAK_jrmlSfzH-2sOAFaDP1bmeUfuNo7YM,19719
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- ngio/tables/v1/__init__.py,sha256=Wr1_9RZFpaN8FYMTnxT9Yjkw4AS7y9FMWailmB_uj5g,617
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- ngio/tables/v1/_condition_table.py,sha256=T0Uq5BKkmMoEspt_Rx0U99Ow6S9GAMZDHqvUO5obCAM,1780
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- ngio/tables/v1/_feature_table.py,sha256=n9uMHwoBh-_dlOhUXCFbmAjXFVXncNCR3SjE2qzXI68,3821
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- ngio/tables/v1/_generic_table.py,sha256=1ktJHeuv7U1g5Z8PFUuTkCjOzcYMQd8xegKHKUedJB8,1240
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- ngio/tables/v1/_roi_table.py,sha256=b7lwjsdCSUOCMT6Lx4hwAqGBKC25Q5bdzoK3DQWnAQM,17074
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- ngio/transforms/__init__.py,sha256=JA0-Ui7skbXkm9ofN-AEhU1FTLutkMkwTdVD-310frQ,113
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- ngio/transforms/_zoom.py,sha256=otyE-vxFnywUJ8U4mHjat-bNG_7_jv62ckTpqDMxyVQ,550
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- ngio/utils/__init__.py,sha256=XPYh8ehC7uXNU2cFFXZAw-S3DpWpX1Yq2xGkffZv5vI,1142
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- ngio/utils/_datasets.py,sha256=YOV367skFA8nbKAqbyK0EsUU7E9UId_u5ButuLesrzk,5896
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- ngio/utils/_errors.py,sha256=pKQ12LUjQLYE1nUawemA5h7HsgznjaSvV1n2PQU33N0,759
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- ngio/utils/_fractal_fsspec_store.py,sha256=RdcCFOgHexRKX9zZvJV5RI-5OPc7VOPS6q_IeRxm24I,1548
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- ngio/utils/_logger.py,sha256=N5W0a_xwze4blS1MolidBkTMbjTbg8GPguJZNun3mAE,1392
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- ngio/utils/_zarr_utils.py,sha256=GUOcAx02IcfrJ5tIdKu8ChtRUUaBbkkddW5jaCCYnS8,13797
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- ngio-0.4.8.dist-info/METADATA,sha256=Z01svPND2BsHMW6i-PYzEQNiSZI-YEgvWnVHmbEZHhk,6144
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- ngio-0.4.8.dist-info/WHEEL,sha256=WLgqFyCfm_KASv4WHyYy0P3pM_m7J5L9k2skdKLirC8,87
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- ngio-0.4.8.dist-info/licenses/LICENSE,sha256=UgN_a1QCeNh9rZWfz-wORQFxE3elQzLWPQaoK6N6fxQ,1502
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- ngio-0.4.8.dist-info/RECORD,,
{ngio-0.4.8.dist-info → ngio-0.5.0.dist-info}/WHEEL RENAMED
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