92 lines
2.5 KiB
Nix
92 lines
2.5 KiB
Nix
{
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lib,
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buildPythonPackage,
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pythonOlder,
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fetchFromGitHub,
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pytestCheckHook,
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aiohttp,
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dask,
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distributed,
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fsspec,
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numpy,
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requests,
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scikit-image,
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toolz,
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zarr,
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}:
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buildPythonPackage rec {
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pname = "ome-zarr";
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version = "0.9.0";
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format = "setuptools";
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disabled = pythonOlder "3.6";
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src = fetchFromGitHub {
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owner = "ome";
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repo = "ome-zarr-py";
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rev = "refs/tags/v${version}";
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hash = "sha256-YOG9+ONf2OnkSZBL/Vb8Inebx4XDSGJb2fqypaWebhY=";
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};
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propagatedBuildInputs = [
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numpy
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dask
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distributed
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zarr
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fsspec
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aiohttp
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requests
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scikit-image
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toolz
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] ++ fsspec.passthru.optional-dependencies.s3;
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nativeCheckInputs = [ pytestCheckHook ];
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disabledTests = [
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# attempts to access network
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"test_s3_info"
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];
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pytestFlagsArray = [
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# Fail with RecursionError
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# https://github.com/ome/ome-zarr-py/issues/352
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"--deselect=tests/test_cli.py::TestCli::test_astronaut_download"
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"--deselect=tests/test_cli.py::TestCli::test_astronaut_info"
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"--deselect=tests/test_cli.py::TestCli::test_coins_info"
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"--deselect=tests/test_emitter.py::test_close"
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"--deselect=tests/test_emitter.py::test_create_wrong_encoding"
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"--deselect=tests/test_node.py::TestNode::test_image"
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"--deselect=tests/test_node.py::TestNode::test_label"
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"--deselect=tests/test_node.py::TestNode::test_labels"
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"--deselect=tests/test_ome_zarr.py::TestOmeZarr::test_download"
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"--deselect=tests/test_ome_zarr.py::TestOmeZarr::test_info"
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"--deselect=tests/test_reader.py::TestReader::test_image"
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"--deselect=tests/test_reader.py::TestReader::test_label"
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"--deselect=tests/test_reader.py::TestReader::test_labels"
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"--deselect=tests/test_starting_points.py::TestStartingPoints::test_label"
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"--deselect=tests/test_starting_points.py::TestStartingPoints::test_labels"
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"--deselect=tests/test_starting_points.py::TestStartingPoints::test_top_level"
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];
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pythonImportsCheck = [
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"ome_zarr"
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"ome_zarr.cli"
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"ome_zarr.csv"
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"ome_zarr.data"
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"ome_zarr.format"
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"ome_zarr.io"
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"ome_zarr.reader"
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"ome_zarr.writer"
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"ome_zarr.scale"
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"ome_zarr.utils"
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];
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meta = with lib; {
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description = "Implementation of next-generation file format (NGFF) specifications for storing bioimaging data in the cloud";
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homepage = "https://pypi.org/project/ome-zarr";
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changelog = "https://github.com/ome/ome-zarr-py/blob/v${version}/CHANGELOG.md";
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license = licenses.bsd2;
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maintainers = [ maintainers.bcdarwin ];
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mainProgram = "ome_zarr";
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};
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}
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