patchworks 0.11.19__tar.gz → 0.11.20__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.
- {patchworks-0.11.19 → patchworks-0.11.20}/PKG-INFO +3 -1
- {patchworks-0.11.19 → patchworks-0.11.20}/pyproject.toml +4 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/.github/workflows/docs.yml +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/.github/workflows/lint.yml +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/.github/workflows/release.yml +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/.gitignore +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/.markdownlint-cli2.yaml +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/LICENSE +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/README.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/cliff.toml +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/api/chunks.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/api/cluster.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/api/io.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/api/merge_tile_labels.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/api/plugins/cellpose.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/api/plugins/napari.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/api/plugins/ome_zarr.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/api/relabel.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/api/tile_process.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/assets/logo.png +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/examples/cellpose_2d.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/examples/cellpose_2d.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/examples/cellpose_3d.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/examples/cellpose_3d.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/examples/custom.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/examples/custom_method.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/examples/standalone_merge.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/examples/stardist.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/examples/stardist_2d.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/getting_started.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/guide/gpu_distributed.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/guide/merging.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/guide/ome_zarr_napari.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/guide/performance.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/guide/pitfalls.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/guide/skip_empty.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/guide/snakemake.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/guide/tiling.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/docs/index.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/mkdocs.yml +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/src/patchworks/__init__.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/src/patchworks/_chunks.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/src/patchworks/_cluster.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/src/patchworks/_core.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/src/patchworks/_distributed.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/src/patchworks/_io.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/src/patchworks/_merge.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/src/patchworks/_relabel.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/src/patchworks/_relations.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/src/patchworks/plugins/__init__.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/src/patchworks/plugins/cellpose.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/src/patchworks/plugins/napari.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/src/patchworks/plugins/ome_zarr.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/tests/test_core.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/tests/test_distributed.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/tests/test_napari.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/tests/test_ome_zarr.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/tests/test_relations.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/workflow/README.md +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/workflow/Snakefile +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/workflow/config/config.yaml +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/workflow/config/config_cyto.yaml +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/workflow/config/config_nuclei.yaml +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/workflow/config/multi.yaml +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/workflow/pixi.toml +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/workflow/profile/slurm/config.yaml +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/workflow/rules/common.smk +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/workflow/rules/convert.smk +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/workflow/rules/merge.smk +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/workflow/rules/segment.smk +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/workflow/scripts/_pw.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/workflow/scripts/convert.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/workflow/scripts/fetch_model.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/workflow/scripts/merge.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/workflow/scripts/prepare_tiles.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/workflow/scripts/run_multi.py +0 -0
- {patchworks-0.11.19 → patchworks-0.11.20}/workflow/scripts/segment_tile.py +0 -0
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Metadata-Version: 2.4
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Name: patchworks
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Version: 0.11.
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Version: 0.11.20
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Summary: Tiled processing of arbitrarily large images with globally consistent labels
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Project-URL: Homepage, https://github.com/imcf/patchworks
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Project-URL: Issues, https://github.com/imcf/patchworks/issues
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@@ -34,6 +34,7 @@ Requires-Dist: glasbey; extra == 'all'
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Requires-Dist: imaris-ims-file-reader; extra == 'all'
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Requires-Dist: ipykernel<7; extra == 'all'
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Requires-Dist: lxml-html-clean; extra == 'all'
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Requires-Dist: napari-dask-ndmeasure>=0.1.0; extra == 'all'
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Requires-Dist: napari[all]>=0.7.1; extra == 'all'
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Requires-Dist: numpy<2.5; extra == 'all'
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Requires-Dist: nvidia-ml-py; extra == 'all'
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@@ -74,6 +75,7 @@ Provides-Extra: napari
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Requires-Dist: glasbey; extra == 'napari'
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Requires-Dist: ipykernel<7; extra == 'napari'
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Requires-Dist: lxml-html-clean; extra == 'napari'
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Requires-Dist: napari-dask-ndmeasure>=0.1.0; extra == 'napari'
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Requires-Dist: napari[all]>=0.7.1; extra == 'napari'
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Requires-Dist: numpy<2.5; extra == 'napari'
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Provides-Extra: workflow
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@@ -67,12 +67,16 @@ imaris = ["imaris-ims-file-reader"]
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# - lxml-html-clean: napari's notebook_display imports lxml.html.clean, split
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# into a separate package in lxml >= 5.2 (else ImportError on Viewer()).
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# - glasbey: distinct high-contrast label LUTs for view_in_napari.
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# - napari-dask-ndmeasure: out-of-core regionprops-style measurements
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# (area/centroid/intensity stats) for huge Labels layers, straight off
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# their backing dask/zarr arrays — the "Measure" dock widget.
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napari = [
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"napari[all]>=0.7.1",
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"numpy<2.5",
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"ipykernel<7",
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"lxml-html-clean",
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"glasbey",
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"napari-dask-ndmeasure>=0.1.0",
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]
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# workflow runs the Snakemake pipeline (per-tile SLURM jobs across GPUs).
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workflow = ["snakemake>=8", "snakemake-executor-plugin-slurm"]
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