85 lines
1.7 KiB
Nix
85 lines
1.7 KiB
Nix
{
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lib,
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buildPythonPackage,
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fetchFromGitHub,
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# build-system
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setuptools,
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# dependencies
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gdcm,
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nibabel,
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numpy,
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pydicom,
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scipy,
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# tests
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pillow,
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pylibjpeg,
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pylibjpeg-libjpeg,
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pytestCheckHook,
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}:
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buildPythonPackage rec {
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pname = "dicom2nifti";
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version = "2.6.2";
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pyproject = true;
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# no tests in PyPI dist
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src = fetchFromGitHub {
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owner = "icometrix";
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repo = "dicom2nifti";
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tag = version;
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hash = "sha256-VS1ad7sAgVWkFkTPLxzloj0dvweW5wqBlQpFqD9uZLs=";
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};
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postPatch = ''
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substituteInPlace tests/test_generic.py --replace-fail "from common" "from dicom2nifti.common"
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substituteInPlace tests/test_ge.py --replace-fail "import convert_generic" "import dicom2nifti.convert_generic as convert_generic"
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'';
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build-system = [ setuptools ];
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dependencies = [
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gdcm
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nibabel
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numpy
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pydicom
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scipy
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];
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pythonImportsCheck = [ "dicom2nifti" ];
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nativeCheckInputs = [
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pillow
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pylibjpeg
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pylibjpeg-libjpeg
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pytestCheckHook
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];
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disabledTests = [
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# OverflowError: Python integer -1024 out of bounds for uint16
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"test_not_a_volume"
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"test_resampling"
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"test_validate_orthogonal_disabled"
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# RuntimeError: Unable to decompress 'JPEG 2000 Image Compression (Lossless O...
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"test_anatomical"
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"test_compressed_j2k"
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"test_main_function"
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"test_rgb"
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# Missing script 'dicom2nifti_scrip'
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"test_gantry_option"
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"test_gantry_resampling"
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];
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meta = {
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homepage = "https://github.com/icometrix/dicom2nifti";
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description = "Library for converting dicom files to nifti";
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mainProgram = "dicom2nifti";
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license = lib.licenses.mit;
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maintainers = with lib.maintainers; [ bcdarwin ];
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};
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}
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