Unverified Commit a2c2cc0e authored by OTABI Tomoya's avatar OTABI Tomoya Committed by GitHub
Browse files

Merge pull request #329983 from bcdarwin/multiscale-spatial-image

python312Packages.multiscale-spatial-image: init at 1.0.1
parents 428548fa 3bc8698d
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+81 −0
Original line number Diff line number Diff line
{
  lib,
  buildPythonPackage,
  pythonOlder,
  fetchFromGitHub,
  hatchling,
  dask,
  numpy,
  python-dateutil,
  spatial-image,
  xarray,
  xarray-datatree,
  zarr,
  dask-image,
  fsspec,
  jsonschema,
  nbmake,
  pooch,
  pytestCheckHook,
  pytest-mypy,
  urllib3,
}:

buildPythonPackage rec {
  pname = "multiscale-spatial-image";
  version = "1.0.1";
  pyproject = true;

  disabled = pythonOlder "3.8";

  src = fetchFromGitHub {
    owner = "spatial-image";
    repo = "multiscale-spatial-image";
    rev = "refs/tags/v${version}";
    hash = "sha256-s/88N8IVkj+9MZYAtEJSpmmDdjIxf4S6U5gYr86Ikrw=";
  };

  build-system = [ hatchling ];

  dependencies = [
    dask
    numpy
    python-dateutil
    spatial-image
    xarray
    xarray-datatree
    zarr
  ];

  optional-dependencies = {
    dask-image = [ dask-image ];
    #itk = [
    #  itk-filtering # not in nixpkgs yet
    #];
    test = [
      dask-image
      fsspec
      #ipfsspec # not in nixpkgs
      #itk-filtering # not in nixpkgs
      jsonschema
      nbmake
      pooch
      pytest-mypy
      urllib3
    ];
  };

  nativeCheckInputs = [ pytestCheckHook ] ++ optional-dependencies.test;

  doCheck = false; # all test files try to download data

  pythonImportsCheck = [ "multiscale_spatial_image" ];

  meta = {
    description = "Generate a multiscale, chunked, multi-dimensional spatial image data structure that can serialized to OME-NGFF";
    homepage = "https://github.com/spatial-image/multiscale-spatial-image";
    changelog = "https://github.com/spatial-image/multiscale-spatial-image/releases/tag/v${version}";
    license = lib.licenses.asl20;
    maintainers = with lib.maintainers; [ bcdarwin ];
  };
}
+59 −0
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{
  lib,
  buildPythonPackage,
  fetchFromGitHub,
  pythonOlder,
  check-manifest,
  setuptools,
  setuptools-scm,
  packaging,
  pytestCheckHook,
  xarray,
  zarr,
}:

buildPythonPackage rec {
  pname = "datatree";
  version = "0.0.14";
  pyproject = true;

  disabled = pythonOlder "3.9";

  src = fetchFromGitHub {
    owner = "xarray-contrib";
    repo = "datatree";
    rev = "refs/tags/v${version}";
    hash = "sha256-C6+WcHc2+sftJ5Yyh/9TTIHhAEwhAqSsSkaDwtq7J90=";
  };

  build-system = [
    check-manifest
    setuptools
    setuptools-scm
  ];

  dependencies = [
    packaging
    xarray
  ];

  nativeCheckInputs = [
    pytestCheckHook
    zarr
  ];

  pythonImportsCheck = [ "datatree" ];

  disabledTests = [
    # output formatting issue, likely due to underlying library version difference:
    "test_diff_node_data"
  ];

  meta = with lib; {
    description = "Tree-like hierarchical data structure for xarray";
    homepage = "https://xarray-datatree.readthedocs.io";
    changelog = "https://github.com/xarray-contrib/datatree/releases/tag/v${version}";
    license = licenses.asl20;
    maintainers = with maintainers; [ bcdarwin ];
  };
}
+4 −0
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@@ -8017,6 +8017,8 @@ self: super: with self; {
  multiprocess = callPackage ../development/python-modules/multiprocess { };
  multiscale-spatial-image = callPackage ../development/python-modules/multiscale-spatial-image { };
  multiset = callPackage ../development/python-modules/multiset { };
  multitasking = callPackage ../development/python-modules/multitasking { };
@@ -17434,6 +17436,8 @@ self: super: with self; {
  xarray-dataclasses = callPackage ../development/python-modules/xarray-dataclasses { };
  xarray-datatree = callPackage ../development/python-modules/xarray-datatree { };
  xarray-einstats = callPackage ../development/python-modules/xarray-einstats { };
  xattr = callPackage ../development/python-modules/xattr { };