tjh.dev
nixpkgs mirror (for testing)
github.com/NixOS/nixpkgs
nix
python3Packages.hdbscan: fix build error
+38
-12
+38
-12
pkgs/development/python-modules/hdbscan/default.nix
+38
-12
pkgs/development/python-modules/hdbscan/default.nix
···
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{
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lib,
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buildPythonPackage,
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fetchFromGitHub,
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fetchpatch,
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cython,
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numpy,
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pytestCheckHook,
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scipy,
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scikit-learn,
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fetchPypi,
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joblib,
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six,
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+
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# test
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pytestCheckHook,
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}:
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buildPythonPackage rec {
···
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version = "0.8.40";
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format = "setuptools";
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src = fetchPypi {
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inherit pname version;
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hash = "sha256-yeOD/xe+7gWRB1/2XVJL2ltaNd+wHSGCRae6MMjUihc=";
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src = fetchFromGitHub {
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owner = "scikit-learn-contrib";
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repo = "hdbscan";
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tag = "release-${version}";
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hash = "sha256-xsBlmSQU47e+M+nRqUXdWKS7Rtj2QZ1UWLAvjSQOJ0Q=";
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};
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patches = [
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(fetchpatch {
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# Replace obsolete use of assert_raises with pytest.raises
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name = "replace-assert_raises";
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url = "https://github.com/scikit-learn-contrib/hdbscan/pull/667/commits/04d6a4dcdcd2bb2597419b8aa981d7620765809f.patch";
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hash = "sha256-z/u5b2rNPKOCe+3/GVE8rMB5ajeU5PrvLVesjEgj9TA=";
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})
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];
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pythonRemoveDeps = [ "cython" ];
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nativeBuildInputs = [
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cython
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];
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propagatedBuildInputs = [
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numpy
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scipy
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scikit-learn
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joblib
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numpy
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scikit-learn
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scipy
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six
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];
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preCheck = ''
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cd hdbscan/tests
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rm __init__.py
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'';
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nativeCheckInputs = [ pytestCheckHook ];
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disabledTests = [
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# known flaky tests: https://github.com/scikit-learn-contrib/hdbscan/issues/420
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"test_mem_vec_diff_clusters"
···
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# more flaky tests https://github.com/scikit-learn-contrib/hdbscan/issues/570
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"test_hdbscan_boruvka_balltree"
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"test_hdbscan_best_balltree_metric"
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# "got an unexpected keyword argument"
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"test_hdbscan_badargs"
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];
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disabledTestPaths = [
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# joblib.externals.loky.process_executor.BrokenProcessPool:
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"test_branches.py"
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];
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pythonImportsCheck = [ "hdbscan" ];
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meta = with lib; {
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meta = {
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description = "Hierarchical Density-Based Spatial Clustering of Applications with Noise, a clustering algorithm with a scikit-learn compatible API";
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homepage = "https://github.com/scikit-learn-contrib/hdbscan";
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license = licenses.bsd3;
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changelog = "https://github.com/scikit-learn-contrib/hdbscan/releases/tag/release-${version}";
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license = lib.licenses.bsd3;
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maintainers = [ ];
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};
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}