Merge pull request #230596 from luizirber/lirber/sourmash

python3Packages.sourmash: init at 4.8.3

pkgs/development/python-modules/sourmash/default.nix

@@ -0,0 +1,78 @@
+{ lib
+, fetchPypi
+, buildPythonPackage
+, pythonOlder
+, rustPlatform
+, bitstring
+, cachetools
+, cffi
+, deprecation
+, iconv
+, matplotlib
+, numpy
+, scipy
+, screed
+, hypothesis
+, pytest-xdist
+, pyyaml
+, pytestCheckHook
+}:
+
+buildPythonPackage rec {
+  pname = "sourmash";
+  version = "4.8.3";
+  format = "pyproject";
+  disabled = pythonOlder "3.8";
+
+  src = fetchPypi {
+    inherit pname version;
+    hash = "sha256-LIMpL9cLafytRFyPam/FBNi757j1v6o1FG/K2JknDQY=";
+  };
+
+  cargoDeps = rustPlatform.fetchCargoTarball {
+    inherit src;
+    name = "${pname}-${version}";
+    hash = "sha256-mcJzFRYkdxuqqXH+ryg5v+9tQtuN1hkEeW2DF+wEJ/w=";
+  };
+
+  nativeBuildInputs = with rustPlatform; [
+    cargoSetupHook
+    maturinBuildHook
+  ];
+
+  buildInputs = [ iconv ];
+
+  propagatedBuildInputs = [
+    bitstring
+    cachetools
+    cffi
+    deprecation
+    matplotlib
+    numpy
+    scipy
+    screed
+  ];
+
+  pythonImportsCheck = [ "sourmash" ];
+  nativeCheckInputs = [
+    hypothesis
+    pytest-xdist
+    pytestCheckHook
+    pyyaml
+  ];
+
+  # TODO(luizirber): Working on fixing these upstream
+  disabledTests = [
+    "test_compare_no_such_file"
+    "test_do_sourmash_index_multiscaled_rescale_fail"
+    "test_metagenome_kreport_out_fail"
+  ];
+
+  meta = with lib; {
+    description = "Quickly search, compare, and analyze genomic and metagenomic data sets";
+    homepage = "https://sourmash.bio";
+    changelog = "https://github.com/sourmash-bio/sourmash/releases/tag/v${version}";
+    maintainers = with maintainers; [ luizirber ];
+    license = licenses.bsd3;
+  };
+}

pkgs/top-level/python-packages.nix

@@ -11879,6 +11879,8 @@ self: super: with self; {
 
   soupsieve = callPackage ../development/python-modules/soupsieve { };
 
+  sourmash = callPackage ../development/python-modules/sourmash { };
+
   soxr = callPackage ../development/python-modules/soxr {
     libsoxr = pkgs.soxr;
   };