Merge pull request #299223 from NixOS/python-updates

[python-updates] 2024-03-24 - selective updates

pkgs/applications/audio/miniplayer/default.nix

···
     hash = "sha256-iUUsVIDLQAiaMomfA2LvvJZ2ePhgADtC6GCwIpRC1MA=";
   };
 
-  propagatedBuildInputs = [
+  build-system = [
+    setuptools
+  ];
+
+  dependencies = [
     colorthief
     ffmpeg-python
     mpd2
···
     requests
     ueberzug
   ];
+
+  doCheck = false; # no tests
 
   # pythonImportsCheck is disabled because this package doesn't expose any modules.
 

pkgs/applications/misc/electron-cash/default.nix

···
     sha256 = "sha256-xOyj5XerOwgfvI0qj7+7oshDvd18h5IeZvcJTis8nWo=";
   };
 
+  build-system = with python3Packages; [
+    cython
+  ];
+
   propagatedBuildInputs = with python3Packages; [
     # requirements
     pyaes
···
     cryptography
 
     # requirements-hw
-    cython
     trezor
     keepkey
     btchip-python

pkgs/applications/science/biology/macs2/default.nix

···
   ];
 
   nativeBuildInputs = with python3.pkgs; [
-    cython
+    cython_0
     numpy
     setuptools
     wheel

pkgs/applications/science/math/sage/python-modules/sage-setup.nix

···
 { lib
 , buildPythonPackage
 , sage-src
-, cython_3
+, cython
 , jinja2
 , pkgconfig # the python module, not the pkg-config alias
 }:
···
   pname = "sage-setup";
   src = sage-src;
 
-  nativeBuildInputs = [ cython_3 ];
+  nativeBuildInputs = [ cython ];
   buildInputs = [ pkgconfig ];
   propagatedBuildInputs = [ jinja2 ];
 

pkgs/applications/science/math/sage/sagelib.nix

···
 , cvxopt
 , cypari2
 , cysignals
-, cython_3
+, cython
 , fpylll
 , gmpy2
 , importlib-metadata
···
     cvxopt
     cypari2
     cysignals
-    cython_3
+    cython
     fpylll
     gmpy2
     importlib-metadata

pkgs/applications/version-management/commitizen/default.nix

···
     pytest-freezer
     pytest-mock
     pytest-regressions
-    (pytestCheckHook.override { pytest = pytest_7; })
+    pytest7CheckHook
   ];
 
   doCheck = true;

pkgs/applications/version-management/git-up/default.nix

···
 
   nativeCheckInputs = [
     git
-    pythonPackages.pytestCheckHook
+    pythonPackages.pytest7CheckHook
   ];
 
   # 1. git fails to run as it cannot detect the email address, so we set it

pkgs/applications/virtualization/virt-manager/default.nix

···
   '';
 
   nativeCheckInputs = with python3.pkgs; [
-    pytestCheckHook
+    pytest7CheckHook
     cpio
     cdrtools
     xorriso

pkgs/by-name/pr/pretalx/package.nix

···
 
   pythonRelaxDeps = [
     "django-csp"
+    "django-filter"
     "python-dateutil"
   ];
 

pkgs/by-name/pr/pretix/package.nix

···
       --replace-fail psycopg2-binary psycopg2 \
       --replace-fail vat_moss_forked==2020.3.20.0.11.0 vat-moss \
       --replace-fail "bleach==5.0.*" bleach \
+      --replace-fail "django-filter==23.5" django-filter \
       --replace-fail "dnspython==2.5.*" dnspython \
       --replace-fail "importlib_metadata==7.*" importlib_metadata \
       --replace-fail "protobuf==4.25.*" protobuf \
···
   build-system = with python.pkgs; [
     gettext
     nodejs
-    pythonRelaxDepsHook
     setuptools
     tomli
   ];

pkgs/desktops/gnome/misc/gnome-extensions-cli/default.nix

···
 
   pythonRelaxDeps = [
     "more-itertools"
+    "packaging"
   ];
 
   propagatedBuildInputs = [

pkgs/development/compilers/vyper/default.nix

···
 
   pythonRelaxDeps = [
     "asttokens"
+    "packaging"
   ];
 
   propagatedBuildInputs = [

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

···
 , buildPythonPackage
 , fetchFromGitHub
 , pythonOlder
-, pytestCheckHook
-, pytest_7
+, pytest7CheckHook
 , setuptools
 , numpy
 , packaging
···
   nativeCheckInputs = [
     evaluate
     parameterized
-    (pytestCheckHook.override { pytest = pytest_7; })
+    pytest7CheckHook
     transformers
   ];
   preCheck = ''

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

···
 , pythonOlder
 
 # build-system
-, cython_3
+, cython
 , setuptools
 
 # dependencies
···
 
   build-system = [
     setuptools
-    cython_3
+    cython
   ];
 
   dependencies = [

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

···
 , freezegun
 , gunicorn
 , pytest-mock
-, pytestCheckHook
-, pytest_7
+, pytest7CheckHook
 , python-on-whales
 , re-assert
 , trustme
···
     freezegun
     gunicorn
     pytest-mock
-    (pytestCheckHook.override { pytest = pytest_7; })
+    pytest7CheckHook
     python-on-whales
     re-assert
   ] ++ lib.optionals (!(stdenv.isDarwin && stdenv.isAarch64)) [

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

···
 , typing-extensions
 
 # tests
-, pytestCheckHook
+, pytest7CheckHook
 , pytest-xdist
 , python-dateutil
 }:
···
   ];
 
   nativeCheckInputs = [
-    pytestCheckHook
+    pytest7CheckHook
     pytest-xdist
     python-dateutil
   ];

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

···
 , fontconfig
 , graphviz
 , poetry-core
-, pytestCheckHook
+, pytest7CheckHook
 , pythonOlder
 , six
 , substituteAll
···
 
 buildPythonPackage rec {
   pname = "anytree";
-  version = "2.12.0";
+  version = "2.12.1";
   format = "pyproject";
 
   disabled = pythonOlder "3.7";
···
     owner = "c0fec0de";
     repo = "anytree";
     rev = "refs/tags/${version}";
-    hash = "sha256-8mV9Lf6NLPUDVurXCxG+tqe7+3TrIn2H+7tHa6BpTzk=";
+    hash = "sha256-5HU8kR3B2RHiGBraQ2FTgVtGHJi+Lha9U/7rpNsYCCI=";
   };
 
   patches = lib.optionals withGraphviz [
···
   ];
 
   nativeCheckInputs = [
-    pytestCheckHook
-  ];
-
-  pytestFlagsArray = [
-    # pytest.PytestRemovedIn8Warning: Support for nose tests is deprecated and will be removed in a future release.
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
+    pytest7CheckHook
   ];
 
   # Tests print “Fontconfig error: Cannot load default config file”

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

···
 { lib
 , buildPythonPackage
 , fetchFromGitHub
+, setuptools
 , sqlite
 , isPyPy
 , python
···
 
 buildPythonPackage rec {
   pname = "apsw";
-  version = "3.45.1.0";
-  format = "setuptools";
+  version = "3.45.2.0";
+  pyproject = true;
 
   disabled = isPyPy;
 
···
     owner = "rogerbinns";
     repo = "apsw";
     rev = "refs/tags/${version}";
-    hash = "sha256-NkpkciLR2TgfK/7UQHEzvQu8qRj4UJyOlGQbiV23qrc=";
+    hash = "sha256-tTi3/10W4OoGH6PQVhvPWc5o09on5BZrWoAvrfh4C/E=";
   };
+
+  build-system = [
+    setuptools
+  ];
 
   buildInputs = [
     sqlite
···
   ];
 
   meta = with lib; {
+    changelog = "https://github.com/rogerbinns/apsw/blob/${src.rev}/doc/changes.rst";
     description = "A Python wrapper for the SQLite embedded relational database engine";
     homepage = "https://github.com/rogerbinns/apsw";
     license = licenses.zlib;

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

···
 
 # build time
 , astropy-extension-helpers
-, cython_3
+, cython
 , jinja2
 , oldest-supported-numpy
 , setuptools-scm
···
 
   nativeBuildInputs = [
     astropy-extension-helpers
-    cython_3
+    cython
     jinja2
     oldest-supported-numpy
     setuptools-scm

pkgs/development/python-modules/aws-encryption-sdk/default.nix

···
     pytestCheckHook
   ];
 
-  pytestFlagsArray = [
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
-  ];
-
   disabledTestPaths = [
     # Tests require networking
     "examples"
     "test/integration"
+  ];
+
+  disabledTests = [
+    # pytest 8 compat issue
+    "test_happy_version"
   ];
 
   pythonImportsCheck = [

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

···
 , pyparsing
 , pytestCheckHook
 , pythonOlder
+, pythonRelaxDepsHook
 , redshift-connector
 , requests-aws4auth
 }:
···
 
   nativeBuildInputs = [
     poetry-core
+    pythonRelaxDepsHook
+  ];
+
+  pythonRelaxDeps = [
+    "packaging"
   ];
 
   propagatedBuildInputs = [

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

···
 , buildPythonPackage
 , fetchFromGitHub
 , poetry-core
-, pytestCheckHook
+, pytest7CheckHook
 , pythonRelaxDepsHook
 , setuptools
 , jsonschema
···
   ];
 
   nativeCheckInputs = [
-    pytestCheckHook
-  ];
-
-  pytestFlagsArray = [
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
+    pytest7CheckHook
   ];
 
   meta = with lib; {

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

···
 , isort
 , python
 , pydantic
-, pytestCheckHook
+, pytest7CheckHook
 , pytest-asyncio
 , pytest-mock
 , typing-extensions
···
     pydantic
     pytest-asyncio
     pytest-mock
-    pytestCheckHook
+    pytest7CheckHook
     tomlkit
   ] ++ lib.flatten (builtins.attrValues passthru.optional-dependencies);
 

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

···
 , buildPythonPackage
 , fetchFromGitHub
 , setuptools
-, cython
+, cython_0
 , hypothesis
 , numpy
 , pytestCheckHook
···
 
   nativeBuildInputs = [
     setuptools
-    cython
+    cython_0
   ];
 
   propagatedBuildInputs = [

pkgs/development/python-modules/blosc2/default.nix

···
 
 # build-system
 , cmake
-, cython_3
+, cython
 , ninja
 , oldest-supported-numpy
 , pkg-config
···
 
   nativeBuildInputs = [
     cmake
-    cython_3
+    cython
     ninja
     oldest-supported-numpy
     pkg-config

pkgs/development/python-modules/bluetooth-data-tools/default.nix

···
 , buildPythonPackage
 , fetchFromGitHub
 , cryptography
-, cython_3
+, cython
 , poetry-core
 , pytestCheckHook
 , pythonOlder
···
   env.REQUIRE_CYTHON = 1;
 
   nativeBuildInputs = [
-    cython_3
+    cython
     poetry-core
     setuptools
   ];

pkgs/development/python-modules/cached-ipaddress/default.nix

···
 { lib
 , buildPythonPackage
-, cython_3
+, cython
 , fetchFromGitHub
 , poetry-core
 , pytestCheckHook
···
   '';
 
   nativeBuildInputs = [
-    cython_3
+    cython
     poetry-core
     setuptools
     wheel

pkgs/development/python-modules/cassandra-driver/default.nix

···
 , stdenv
 , buildPythonPackage
 , cryptography
-, cython
+, cython_0
 , eventlet
 , fetchFromGitHub
 , geomet
···
   '';
 
   nativeBuildInputs = [
-    cython
+    cython_0
   ];
 
   buildInputs = [

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

···
 
 buildPythonPackage rec {
   pname = "certifi";
-  version = "2023.11.17";
+  version = "2024.02.02";
   pyproject = true;
 
   disabled = pythonOlder "3.6";
···
     owner = pname;
     repo = "python-certifi";
     rev = version;
-    hash = "sha256-H3zsFJjWt2+tT7yqQOOZZwSL5y0AtfDz6Fqxwpm4Wl8=";
+    hash = "sha256-gnWJjZy5E/0lvAeLftXNtcHH6RHL/dUomXOBgumiWX8=";
   };
 
   patches = [

pkgs/development/python-modules/certifi/env.patch

···
 diff --git a/certifi/core.py b/certifi/core.py
-index de02898..c033d20 100644
+index 91f538b..1110ce0 100644
 --- a/certifi/core.py
 +++ b/certifi/core.py
-@@ -4,15 +4,25 @@ certifi.py
+@@ -4,6 +4,7 @@ certifi.py
  
  This module returns the installation location of cacert.pem or its contents.
  """
 +import os
  import sys
+ import atexit
+ 
+@@ -11,12 +12,21 @@ def exit_cacert_ctx() -> None:
+     _CACERT_CTX.__exit__(None, None, None)  # type: ignore[union-attr]
  
  
 +def get_cacert_path_from_environ():
···
  
      def where() -> str:
          # This is slightly terrible, but we want to delay extracting the file
-@@ -39,14 +49,16 @@ if sys.version_info >= (3, 11):
+@@ -44,6 +54,8 @@ if sys.version_info >= (3, 11):
          return _CACERT_PATH
  
      def contents() -> str:
--        return files("certifi").joinpath("cacert.pem").read_text(encoding="ascii")
 +        if _CACERT_PATH is not None:
 +            return open(_CACERT_PATH, encoding="utf-8").read()
-+        return files("certifi").joinpath("cacert.pem").read_text(encoding="utf-8")
+         return files("certifi").joinpath("cacert.pem").read_text(encoding="ascii")
  
  elif sys.version_info >= (3, 7):
- 
+@@ -51,7 +63,7 @@ elif sys.version_info >= (3, 7):
      from importlib.resources import path as get_path, read_text
  
      _CACERT_CTX = None
···
  
      def where() -> str:
          # This is slightly terrible, but we want to delay extracting the
-@@ -74,7 +86,9 @@ elif sys.version_info >= (3, 7):
+@@ -80,7 +92,9 @@ elif sys.version_info >= (3, 7):
          return _CACERT_PATH
  
      def contents() -> str:
···
  
  else:
      import os
-@@ -84,6 +98,8 @@ else:
+@@ -90,6 +104,8 @@ else:
      Package = Union[types.ModuleType, str]
      Resource = Union[str, "os.PathLike"]
  
···
      # This fallback will work for Python versions prior to 3.7 that lack the
      # importlib.resources module but relies on the existing `where` function
      # so won't address issues with environments like PyOxidizer that don't set
-@@ -102,7 +118,14 @@ else:
+@@ -108,7 +124,13 @@ else:
      def where() -> str:
          f = os.path.dirname(__file__)
  
···
          return os.path.join(f, "cacert.pem")
  
      def contents() -> str:
--        return read_text("certifi", "cacert.pem", encoding="ascii")
 +        if _CACERT_PATH is not None:
 +            with open(_CACERT_PATH, encoding="utf-8") as data:
 +                return data.read()
-+
-+        return read_text("certifi", "cacert.pem", encoding="utf-8")
+         return read_text("certifi", "cacert.pem", encoding="ascii")

pkgs/development/python-modules/chacha20poly1305-reuseable/default.nix

···
 , pythonOlder
 
 # build-system
-, cython_3
+, cython
 , poetry-core
 , setuptools
 
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
     poetry-core
     setuptools
   ];

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

···
 , mock
 , mypy-extensions
 , pip
-, pytestCheckHook
+, pytest7CheckHook
 , pythonOlder
 , pyyaml
 , requests
···
   nativeCheckInputs = [
     hypothesis
     mock
-    pytestCheckHook
+    pytest7CheckHook
     requests
     websocket-client
-  ];
-
-  pytestFlagsArray = [
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
   ];
 
   disabledTestPaths = [

pkgs/development/python-modules/chart-studio/default.nix

···
     owner = "plotly";
     repo = "plotly.py";
     rev = "refs/tags/v${version}";
-    hash = "sha256-LSZGaefxQC6h9VAJ2wgZyaQPR6vs0wrp2oxd51I3pL8=";
+    hash = "sha256-i//LKTNmoIrusBnpfSGc9cDijPxg/dY/7fumV3kfTAY=";
   };
 
   sourceRoot = "${src.name}/packages/python/chart-studio";

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

···
 , buildPythonPackage
 , pythonOlder
 , fetchFromGitHub
+, setuptools
 , absl-py
 , cloudpickle
 , dm-tree
···
 
 buildPythonPackage rec {
   pname = "chex";
-  version = "0.1.85";
-  format = "setuptools";
+  version = "0.1.86";
+  pyproject = true;
 
   disabled = pythonOlder "3.9";
 
···
     owner = "deepmind";
     repo = "chex";
     rev = "refs/tags/v${version}";
-    hash = "sha256-7k/+2dNNbPBXtbabuOEVpAI7T1SuM4JDf074dmTg/vs=";
+    hash = "sha256-Z5Ns4fG5pC99I4xdGjDMKX6YZpTtd1y0TWcIOtr7dug=";
   };
 
-  propagatedBuildInputs = [
+  build-system = [
+    setuptools
+  ];
+
+  dependencies = [
     absl-py
     jaxlib
     jax

pkgs/development/python-modules/clickhouse-cityhash/default.nix

···
 { lib
 , buildPythonPackage
-, cython_3
+, cython
 , fetchPypi
 , pythonOlder
 , setuptools
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
     setuptools
   ];
 

pkgs/development/python-modules/clickhouse-connect/default.nix

···
 , pythonOlder
 , pytestCheckHook
   # build_requires
-, cython_3
+, cython
   # install_requires
 , certifi
 , importlib-metadata
···
     hash = "sha256-YEtcM9+GO8mYv2pyaBYmXdmWLXVuteKtQIJR4H+Xsd4=";
   };
 
-  nativeBuildInputs = [ cython_3 ];
+  nativeBuildInputs = [ cython ];
   setupPyBuildFlags = [ "--inplace" ];
   enableParallelBuilding = true;
 

pkgs/development/python-modules/clickhouse-driver/default.nix

···
 { lib
 , buildPythonPackage
 , clickhouse-cityhash
-, cython_3
+, cython
 , fetchFromGitHub
 , freezegun
 , lz4
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
     setuptools
   ];
 

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

···
 , boto3
 , psutil
 , pydantic
-, pytestCheckHook
-, pytest_7
+, pytest7CheckHook
 , pytest-cases
 , pytest-cov
 , pytest-xdist
···
     google-cloud-storage
     psutil
     pydantic
-    (pytestCheckHook.override { pytest = pytest_7; })
+    pytest7CheckHook
     pytest-cases
     pytest-cov
     pytest-xdist

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

···
 { lib
 , buildPythonPackage
 , fetchPypi
+, setuptools
+, setuptools-scm
 , param
 , pyct
 , pytest-mpl
···
 buildPythonPackage rec {
   pname = "colorcet";
   version = "3.1.0";
-  format = "setuptools";
+  pyproject = true;
 
   src = fetchPypi {
     inherit pname version;
     hash = "sha256-KSGzzYGiKIqvLWPbwM48JtzYgujDicxQXWiGv3qppOs=";
   };
 
-  propagatedBuildInputs = [
+  build-system = [
+    setuptools
+    setuptools-scm
+  ];
+
+  dependencies = [
     param
     pyct
   ];

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

···
 { lib
 , buildPythonPackage
 , fetchFromGitHub
-, cython_3
+, cython
 , pexpect
 , python
 , pythonOlder
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
     setuptools
   ];
 

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

···
 { lib
 , buildPythonPackage
-, pythonAtLeast
 , pythonOlder
-, fetchpatch
 , fetchPypi
 , setuptools
 , setuptools-scm
···
 , jaraco-test
 , lxml
 , mock
-, pytestCheckHook
+, pytest7CheckHook
 , importlib-resources
 }:
 
···
     jaraco-test
     lxml
     mock
-    pytestCheckHook
+    pytest7CheckHook
   ] ++ lib.optionals (pythonOlder "3.9") [
     importlib-resources
-  ];
-
-  pytestFlagsArray = [
-    # pytest.PytestRemovedIn8Warning: Support for nose tests is deprecated and will be removed in a future release.
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
   ];
 
   disabledTests = [

pkgs/development/python-modules/cypari2/default.nix

···
 , fetchPypi
 , pari
 , gmp
-, cython_3
+, cython
 , cysignals
 }:
 
···
 
   propagatedBuildInputs = [
     cysignals
-    cython_3
+    cython
   ];
 
   checkPhase = ''

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

···
 , autoreconfHook
 , fetchPypi
 , buildPythonPackage
-, cython_3
+, cython
 , pariSupport ? true, pari # for interfacing with the PARI/GP signal handler
 }:
 
···
   '';
 
   propagatedBuildInputs = [
-    cython_3
+    cython
   ] ++ lib.optionals pariSupport [
     # When cysignals is built with pari, including cysignals into the
     # buildInputs of another python package will cause cython to link against

pkgs/development/python-modules/cython/0.nix

···
+{ lib
+, stdenv
+, buildPythonPackage
+, fetchPypi
+, fetchpatch
+, setuptools
+, python
+, pkg-config
+, gdb
+, numpy
+, ncurses
+}:
+
+let
+  excludedTests = [ "reimport_from_subinterpreter" ]
+    # cython's testsuite is not working very well with libc++
+    # We are however optimistic about things outside of testsuite still working
+    ++ lib.optionals (stdenv.cc.isClang or false) [ "cpdef_extern_func" "libcpp_algo" ]
+    # Some tests in the test suite isn't working on aarch64. Disable them for
+    # now until upstream finds a workaround.
+    # Upstream issue here: https://github.com/cython/cython/issues/2308
+    ++ lib.optionals stdenv.isAarch64 [ "numpy_memoryview" ]
+    ++ lib.optionals stdenv.isi686 [ "future_division" "overflow_check_longlong" ]
+  ;
+
+in buildPythonPackage rec {
+  pname = "cython";
+  version = "0.29.36";
+  pyproject = true;
+
+  src = fetchPypi {
+    pname = "Cython";
+    inherit version;
+    hash = "sha256-QcDP0tdU44PJ7rle/8mqSrhH0Ml0cHfd18Dctow7wB8=";
+  };
+
+  nativeBuildInputs = [
+    pkg-config
+    setuptools
+  ];
+
+  nativeCheckInputs = [
+    gdb numpy ncurses
+  ];
+
+  LC_ALL = "en_US.UTF-8";
+
+  patches = [
+    # backport Cython 3.0 trashcan support (https://github.com/cython/cython/pull/2842) to 0.X series.
+    # it does not affect Python code unless the code explicitly uses the feature.
+    # trashcan support is needed to avoid stack overflows during object deallocation in sage (https://trac.sagemath.org/ticket/27267)
+    ./trashcan.patch
+    # The above commit introduces custom trashcan macros, as well as
+    # compiler changes to use them in Cython-emitted code. The latter
+    # change is still useful, but the former has been upstreamed as of
+    # Python 3.8, and the patch below makes Cython use the upstream
+    # trashcan macros whenever available. This is needed for Python
+    # 3.11 support, because the API used in Cython's implementation
+    # changed: https://github.com/cython/cython/pull/4475
+    (fetchpatch {
+      name = "disable-trashcan.patch";
+      url = "https://github.com/cython/cython/commit/e337825cdcf5e94d38ba06a0cb0188e99ce0cc92.patch";
+      hash = "sha256-q0f63eetKrDpmP5Z4v8EuGxg26heSyp/62OYqhRoSso=";
+    })
+  ];
+
+  checkPhase = ''
+    export HOME="$NIX_BUILD_TOP"
+    ${python.interpreter} runtests.py -j$NIX_BUILD_CORES \
+      --no-code-style \
+      ${lib.optionalString (builtins.length excludedTests != 0)
+        ''--exclude="(${builtins.concatStringsSep "|" excludedTests})"''}
+  '';
+
+  # https://github.com/cython/cython/issues/2785
+  # Temporary solution
+  doCheck = false;
+  # doCheck = !stdenv.isDarwin;
+
+  # force regeneration of generated code in source distributions
+  # https://github.com/cython/cython/issues/5089
+  setupHook = ./setup-hook.sh;
+
+  meta = {
+    changelog = "https://github.com/cython/cython/blob/${version}/CHANGES.rst";
+    description = "An optimising static compiler for both the Python programming language and the extended Cython programming language";
+    homepage = "https://cython.org";
+    license = lib.licenses.asl20;
+    maintainers = with lib.maintainers; [ fridh ];
+  };
+}

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

···
 , stdenv
 , buildPythonPackage
 , fetchPypi
-, fetchpatch
 , setuptools
 , python
 , pkg-config
···
 
 in buildPythonPackage rec {
   pname = "cython";
-  version = "0.29.36";
+  version = "3.0.9";
   pyproject = true;
 
   src = fetchPypi {
     pname = "Cython";
     inherit version;
-    hash = "sha256-QcDP0tdU44PJ7rle/8mqSrhH0Ml0cHfd18Dctow7wB8=";
+    hash = "sha256-otNU8FnR8FXTTPqmLFtovHisLOq2QHFI1H+1CM87pPM=";
   };
 
-  nativeBuildInputs = [
+  build-system = [
     pkg-config
     setuptools
   ];
···
     gdb numpy ncurses
   ];
 
-  LC_ALL = "en_US.UTF-8";
-
-  patches = [
-    # backport Cython 3.0 trashcan support (https://github.com/cython/cython/pull/2842) to 0.X series.
-    # it does not affect Python code unless the code explicitly uses the feature.
-    # trashcan support is needed to avoid stack overflows during object deallocation in sage (https://trac.sagemath.org/ticket/27267)
-    ./trashcan.patch
-    # The above commit introduces custom trashcan macros, as well as
-    # compiler changes to use them in Cython-emitted code. The latter
-    # change is still useful, but the former has been upstreamed as of
-    # Python 3.8, and the patch below makes Cython use the upstream
-    # trashcan macros whenever available. This is needed for Python
-    # 3.11 support, because the API used in Cython's implementation
-    # changed: https://github.com/cython/cython/pull/4475
-    (fetchpatch {
-      name = "disable-trashcan.patch";
-      url = "https://github.com/cython/cython/commit/e337825cdcf5e94d38ba06a0cb0188e99ce0cc92.patch";
-      hash = "sha256-q0f63eetKrDpmP5Z4v8EuGxg26heSyp/62OYqhRoSso=";
-    })
-  ];
+  env.LC_ALL = "en_US.UTF-8";
 
   checkPhase = ''
     export HOME="$NIX_BUILD_TOP"

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

···
 { lib
-, stdenv
 , fetchFromGitHub
 , buildPythonPackage
 , unittestCheckHook
-, cython
+, cython_0
 , setuptools
 , wheel
 , numpy
···
   unittestFlagsArray = [ "-s" "test" "-p" "'*.py'" "-v" ];
 
   nativeBuildInputs = [
-    cython
+    cython_0
     setuptools
     wheel
   ];

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

···
 
 buildPythonPackage rec {
   pname = "dask";
-  version = "2024.1.1";
+  version = "2024.2.1";
   pyproject = true;
 
   disabled = pythonOlder "3.9";
···
     owner = "dask";
     repo = "dask";
     rev = "refs/tags/${version}";
-    hash = "sha256-L8bRh2bx36CYrAFXYJF67rCeCRfm5ufhTkMFRJo0yYo=";
+    hash = "sha256-8VFtKPaF0PqCjqFB+plFe1GjUno5j7j86+wxKhzByyw=";
   };
 
   nativeBuildInputs = [
···
     "--reruns 3"
     # Don't run tests that require network access
     "-m 'not network'"
-    # pytest.PytestRemovedIn8Warning: Passing None has been deprecated.
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
   ];
 
   disabledTests = lib.optionals stdenv.isDarwin [

pkgs/development/python-modules/dbt-core/default.nix

···
     "mashumaro"
     "networkx"
     "logbook"
+    "pathspec"
     "urllib3"
   ];
 

pkgs/development/python-modules/dbus-fast/default.nix

···
 { lib
 , async-timeout
 , buildPythonPackage
-, cython_3
+, cython
 , fetchFromGitHub
 , poetry-core
 , pytest-asyncio
···
   env.REQUIRE_CYTHON = 1;
 
   nativeBuildInputs = [
-    cython_3
+    cython
     poetry-core
     setuptools
     wheel

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

···
 
 buildPythonPackage rec {
   pname = "deal";
-  version = "4.24.3";
+  version = "4.24.4";
   format = "pyproject";
   disabled = pythonOlder "3.7";
 
···
     owner = "life4";
     repo = pname;
     rev = "refs/tags/${version}";
-    hash = "sha256-QlM3d/jmg6v3L3D45+cgcCej71U1dl4uZ6sAYGGm3tU=";
+    hash = "sha256-4orpoYfPGSvquhg9w63uUe8QbBa2RUpxaEJ9uy28+fU=";
   };
 
   postPatch = ''
···
     vaa
     urllib3
     flake8
-  ];
-
-  pytestFlagsArray = [
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
   ];
 
   disabledTests = [

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

···
 , ruamel-yaml
 , attrs
 , pythonOlder
-, pytestCheckHook
+, pytest7CheckHook
 , pytest-xdist
 , numpy
 }:
···
   '';
 
   nativeCheckInputs = [
-    pytestCheckHook
+    pytest7CheckHook
     pytest-xdist
     numpy
-  ];
-
-  pytestFlagsArray = [
-    # pytest.PytestRemovedIn8Warning: Passing None has been deprecated.
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
   ];
 
   disabledTestPaths = [

pkgs/development/python-modules/detect-secrets/default.nix

···
 , mock
 , pkgs
 , pyahocorasick
-, pytestCheckHook
+, pytest7CheckHook
 , pythonOlder
 , pyyaml
 , requests
···
 
   nativeCheckInputs = [
     mock
-    pytestCheckHook
+    pytest7CheckHook
     responses
     unidiff
     pkgs.gitMinimal
-  ];
-
-  pytestFlagsArray = [
-    # Pytest.PytestRemovedIn8Warning: Support for nose tests is deprecated and will be removed in a future release.
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
   ];
 
   preCheck = ''

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

···
     pytest-mock
   ];
 
-  pytestFlagsArray = [
-    # pytest.PytestRemovedIn8Warning: Passing None has been deprecated.
-    "-W ignore::pytest.PytestRemovedIn8Warning"
-  ];
-
   disabledTests = [
     # Test for Windows32
     "test_print_subprocess"

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

···
     pythonRelaxDepsHook
   ];
 
+  pythonRelaxDeps = [
+    "packaging"
+    "structlog"
+  ];
+
   propagatedBuildInputs = [
     colorama
     packaging
     pydantic
     redis
     structlog
-  ];
-
-  pythonRelaxDeps = [
-    "structlog"
   ];
 
   pythonImportsCheck = [

pkgs/development/python-modules/django-filter/default.nix

···
 , djangorestframework
 , pytestCheckHook
 , pytest-django
-, python
+, pytz
 }:
 
 buildPythonPackage rec {
   pname = "django-filter";
-  version = "23.5";
-  format = "pyproject";
+  version = "24.1";
+  pyproject = true;
 
   src = fetchPypi {
     inherit pname version;
-    hash = "sha256-Z1g6pDuR/oxJ90qDLZX02EQr5ij9TG1l6fgR9RU6Tlw=";
+    hash = "sha256-ZctDzicgd+Wsaq4QVNdsEhzWtVLilqgqE5Iek3G6+ME=";
   };
 
-  nativeBuildInputs = [ flit-core ];
+  build-system = [ flit-core ];
 
-  propagatedBuildInputs = [ django ];
+  dependencies = [ django ];
 
   pythonImportsCheck = [
     "django_filters"
···
     djangorestframework
     pytestCheckHook
     pytest-django
+    pytz
   ];
 
   env.DJANGO_SETTINGS_MODULE = "tests.settings";

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

···
 , django-guardian
 , pythonOlder
 , pytest-django
-, pytestCheckHook
+, pytest7CheckHook
 , pytz
 , pyyaml
 , uritemplate
···
 
   nativeCheckInputs = [
     pytest-django
-    pytestCheckHook
+    pytest7CheckHook
 
     # optional tests
     coreapi
     django-guardian
     pyyaml
     uritemplate
-  ];
-
-  pytestFlagsArray = [
-    # ytest.PytestRemovedIn8Warning: Support for nose tests is deprecated and will be removed in a future release.
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
   ];
 
   pythonImportsCheck = [ "rest_framework" ];

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

···
 , buildPythonPackage
 , fetchPypi
 , autoconf
-, cython
+, cython_0
 , setuptools
 }:
 
···
 
   nativeBuildInputs = [
     autoconf
-    cython
+    cython_0
     setuptools
   ];
 

pkgs/development/python-modules/ed25519/default.nix

···
-{ lib, fetchPypi, buildPythonPackage }:
+{ lib, fetchPypi, buildPythonPackage, pythonAtLeast }:
 
 buildPythonPackage rec {
   pname = "ed25519";
   version = "1.5";
   format = "setuptools";
+
+  # last commit in 2019, various compat issues with 3.12
+  disabled = pythonAtLeast "3.12";
 
   src = fetchPypi {
     inherit pname version;

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

···
 , buildPythonPackage
 , fetchFromGitHub
 , pytestCheckHook
-, cython_3
+, cython
 , pdm-backend
 , setuptools
 , pythonOlder
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
     pdm-backend
     setuptools
   ];

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

···
 , pythonOlder
 
 , setuptools
-, cython_3
+, cython
 
 , symspellpy
 , numpy
···
 
   build-system = [
     setuptools
-    cython_3
+    cython
   ];
 
   # error: infinite recursion encountered

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

···
 , fetchFromGitHub
 
 # build
-, cython_3
+, cython
 , setuptools
 
 # tests
···
 , mujson
 , orjson
 , pytest-asyncio
-, pytestCheckHook
-, pytest_7
+, pytest7CheckHook
 , pyyaml
 , rapidjson
 , requests
···
   nativeBuildInputs = [
     setuptools
   ] ++ lib.optionals (!isPyPy) [
-    cython_3
+    cython
   ];
 
   __darwinAllowLocalNetworking = true;
···
 
   nativeCheckInputs = [
     # https://github.com/falconry/falcon/blob/master/requirements/tests
-    (pytestCheckHook.override { pytest = pytest_7; })
+    pytest7CheckHook
     pyyaml
     requests
     rapidjson

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

···
 , stdenv
 , buildPythonPackage
 , fetchFromGitHub
+, fetchpatch2
 , pytestCheckHook
 , pythonOlder
 }:
 
 buildPythonPackage rec {
   pname = "fastjsonschema";
-  version = "2.18.1";
+  version = "2.19.1";
   format = "setuptools";
 
   disabled = pythonOlder "3.7";
···
     repo = "python-fastjsonschema";
     rev = "v${version}";
     fetchSubmodules = true;
-    hash = "sha256-t6JnqQgsWAL8oL8+LO0xrXMYsZOlTF3DlXkRiqUzYtU=";
+    hash = "sha256-UxcxVB4ldnGAYJKWEccivon1CwZD588mNiVJOJPNeN8=";
   };
 
-  nativeCheckInputs = [
-    pytestCheckHook
+  patches = [
+    (fetchpatch2 {
+      name = "fastjsonschema-pytest8-compat.patch";
+      url = "https://github.com/horejsek/python-fastjsonschema/commit/efc04daf4124a598182dfcfd497615cd1e633d18.patch";
+      hash = "sha256-G1/PIpdN+KFfRP9pUFf/ANXLq3mzrocEHyBNWQMVOZM=";
+    })
   ];
 
-  pytestFlagsArray = [
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
+  nativeCheckInputs = [
+    pytestCheckHook
   ];
 
   dontUseSetuptoolsCheck = true;

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

···
 , beautifulsoup4
 , buildPythonPackage
 , fetchPypi
-, pytestCheckHook
+, pytest7CheckHook
 , pythonOlder
 , requests
 , requests-mock
···
   ];
 
   nativeCheckInputs = [
-    pytestCheckHook
+    pytest7CheckHook
     requests-mock
-  ];
-
-  pytestFlagsArray = [
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
   ];
 
   pythonImportsCheck = [

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

···
 , buildPythonPackage
 , pythonOlder
 , fetchFromGitHub
-, cython_3
+, cython
 , gdal
 , oldest-supported-numpy
 , setuptools
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
     gdal # for gdal-config
     oldest-supported-numpy
     setuptools

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

···
 { lib
 , buildPythonPackage
 , fetchPypi
+, setuptools
 , mock
 , pytest
 }:
 
 buildPythonPackage rec {
   pname = "flaky";
-  version = "3.7.0";
-  format = "setuptools";
+  version = "3.8.1";
+  pyproject = true;
 
   src = fetchPypi {
     inherit pname version;
-    hash = "sha256-OtEAeAchoZEfV6FlgJt+omWnhjMFrLZnCCIIIMr4qg0=";
+    hash = "sha256-RyBKgeyQXz1az71h2uq8raj51AMWFtm8sGGEYXKWmfU=";
   };
+
+  build-system = [
+    setuptools
+  ];
 
   nativeCheckInputs = [
     mock
···
   '';
 
   meta = with lib; {
+    changelog = "https://github.com/box/flaky/blob/v${version}/HISTORY.rst";
     homepage = "https://github.com/box/flaky";
     description = "Plugin for nose or py.test that automatically reruns flaky tests";
     license = licenses.asl20;

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

···
   ];
 
   pythonRelaxDeps = [
-    "websockets"
     "cookiecutter"
+    "packaging"
     "watchdog"
+    "websockets"
   ];
 
   propagatedBuildInputs = [

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

···
 , fetchPypi
 , pytestCheckHook
 , pythonOlder
+, poetry-core
 , teamcity-messages
 , testtools
 }:
 
 buildPythonPackage rec {
   pname = "flexmock";
-  version = "0.11.3";
-  format = "setuptools";
+  version = "0.12.0";
+  pyproject = true;
 
   disabled = pythonOlder "3.6";
 
   src = fetchPypi {
     inherit pname version;
-    hash = "sha256-sf419qXzJUe1zTGhXAYNmrhj3Aiv8BjNc9x40bZR7dQ=";
+    hash = "sha256-YdBvPRRCuBW3qoWh9HvoONBW9fXRTO/teuv7A0c9FKs=";
   };
 
+  build-system = [
+    poetry-core
+  ];
+
   nativeCheckInputs = [
     pytestCheckHook
     teamcity-messages
     testtools
-  ];
-
-  disabledTests = [
-    "test_failed_test_case"
   ];
 
   pythonImportsCheck = [

pkgs/development/python-modules/flow-record/default.nix

···
 , fetchFromGitHub
 , lz4
 , msgpack
-, pytestCheckHook
-, pytest_7
+, pytest7CheckHook
 , pythonOlder
 , setuptools
 , setuptools-scm
···
   };
 
   nativeCheckInputs = [
-    (pytestCheckHook.override { pytest = pytest_7; })
+    pytest7CheckHook
   ] ++ lib.flatten (builtins.attrValues passthru.optional-dependencies);
 
   pythonImportsCheck = [

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

···
 , xattr
 , skia-pathops
 , uharfbuzz
-, pytestCheckHook
-, pytest_7
+, pytest7CheckHook
 }:
 
 buildPythonPackage rec {
···
   nativeCheckInputs = [
     # test suite fails with pytest>=8.0.1
     # https://github.com/fonttools/fonttools/issues/3458
-    (pytestCheckHook.override { pytest = pytest_7; })
+    pytest7CheckHook
   ] ++ lib.concatLists (lib.attrVals ([
     "woff"
     # "interpolatable" is not included because it only contains 2 tests at the time of writing but adds 270 extra dependencies

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

···
 
 # build-system
 , cysignals
-, cython_3
+, cython
 , pkgconfig
 , setuptools
 
···
   ];
 
   nativeBuildInputs = [
-    cython_3
+    cython
     cysignals
     pkgconfig
     setuptools

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

···
 { lib
 , buildPythonPackage
-, cython_3
+, cython
 , expandvars
 , fetchFromGitHub
 , pep517
···
 
   nativeBuildInputs = [
     expandvars
-    cython_3
+    cython
     pep517
     setuptools
     wheel

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

···
 , pythonOlder
 , pytestCheckHook
 , buildPythonPackage
-, cython
+, cython_0
 , mecab
 , setuptools-scm
 , ipadic
···
     hash = "sha256-4i7Q+TtXTQNSJ1EIcS8KHrVPdCJAgZh86Y6lB8772XU=";
   };
 
-  nativeBuildInputs = [ cython mecab setuptools-scm ];
+  nativeBuildInputs = [ cython_0 mecab setuptools-scm ];
 
   nativeCheckInputs = [ ipadic pytestCheckHook ]
     ++ passthru.optional-dependencies.unidic-lite;

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

···
 { lib
 , fetchFromGitHub
 , buildPythonPackage
-, cython
+, cython_0
 , pkg-config
 , libgbinder
 }:
···
   ];
 
   nativeBuildInputs = [
-    cython
+    cython_0
     pkg-config
   ];
 

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

···
 , python
 , libev
 , cffi
-, cython_3
+, cython
 , greenlet
 , importlib-metadata
 , setuptools
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
     setuptools
     wheel
   ] ++ lib.optionals (!isPyPy) [

pkgs/development/python-modules/graphene-django/default.nix

···
 { stdenv
 , lib
 , buildPythonPackage
-, pythonAtLeast
 , pythonOlder
 , fetchFromGitHub
 
···
 , py
 , pytest-django
 , pytest-random-order
-, pytestCheckHook
+, pytest7CheckHook
 }:
 
 buildPythonPackage rec {
···
     py
     pytest-django
     pytest-random-order
-    pytestCheckHook
+    pytest7CheckHook
   ];
 
-  pytestFlagsArray = [
-    # pytest.PytestRemovedIn8Warning: Passing None has been deprecated.
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
-  ];
-
-  disabledTests = lib.optionals (pythonAtLeast "3.11") [
-    # Python 3.11 support, https://github.com/graphql-python/graphene-django/pull/1365
-    "test_django_objecttype_convert_choices_enum_naming_collisions"
-    "test_django_objecttype_choices_custom_enum_name"
-    "test_django_objecttype_convert_choices_enum_list"
-    "test_schema_representation"
+  disabledTests = [
+    # https://github.com/graphql-python/graphene-django/issues/1510
+    "test_should_filepath_convert_string"
+    "test_should_choice_convert_enum"
+    "test_should_multiplechoicefield_convert_to_list_of_enum"
+    "test_perform_mutate_success_with_enum_choice_field"
   ] ++ lib.optionals stdenv.isDarwin [
     # this test touches files in the "/" directory and fails in darwin sandbox
     "test_should_filepath_convert_string"

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

···
 , pytest-asyncio
 , pytest-benchmark
 , pytest-mock
-, pytestCheckHook
+, pytest7CheckHook
 , pythonOlder
 , pytz
 , snapshottest
···
   ];
 
   nativeCheckInputs = [
-    pytestCheckHook
+    pytest7CheckHook
     pytest-asyncio
     pytest-benchmark
     pytest-mock
···
 
   pytestFlagsArray = [
     "--benchmark-disable"
-    "-W ignore::pytest.PytestRemovedIn8Warning"
   ];
 
   pythonImportsCheck = [

pkgs/development/python-modules/h5py/default.nix

···
 , wheel
 , numpy
 , hdf5
-, cython
+, cython_0
 , pkgconfig
 , mpi4py ? null
 , openssh
···
   preBuild = lib.optionalString mpiSupport "export CC=${lib.getDev mpi}/bin/mpicc";
 
   nativeBuildInputs = [
-    cython
+    cython_0
     oldest-supported-numpy
     pkgconfig
     setuptools

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

···
 
 buildPythonPackage rec {
   pname = "hatchling";
-  version = "1.21.1";
+  version = "1.22.4";
   format = "pyproject";
   disabled = pythonOlder "3.8";
 
   src = fetchPypi {
     inherit pname version;
-    hash = "sha256-u6RARToiTn1EeEV/oujYw2M3Zbr6Apdaa1O5v5F5gLw=";
+    hash = "sha256-ii3OyW1/uEg4LvWEjlrEP9rmQfNaCKP6tRFr1JXzQW4=";
   };
 
   # listed in backend/pyproject.toml

pkgs/development/python-modules/hid-parser/default.nix

···
 , buildPythonPackage
 , fetchPypi
 , setuptools
-, pytestCheckHook
+, pytest7CheckHook
 , hypothesis
 }:
 
···
   ];
 
   nativeCheckInputs = [
-    pytestCheckHook
+    pytest7CheckHook
     hypothesis
-  ];
-
-  pytestFlagsArray = [
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
   ];
 
   pythonImportsCheck = [ "hid_parser" ];

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

···
 , buildPythonPackage
 , fetchPypi
 , xcbuild
-, cython
+, cython_0
 , libusb1
 , udev
 , darwin
···
     sha256 = "a7cb029286ced5426a381286526d9501846409701a29c2538615c3d1a612b8be";
   };
 
-  nativeBuildInputs = lib.optionals stdenv.isDarwin [ xcbuild ];
+  nativeBuildInputs = [ cython_0 ]
+    ++ lib.optionals stdenv.isDarwin [ xcbuild ];
 
-  propagatedBuildInputs = [ cython ]
-    ++ lib.optionals stdenv.isLinux [ libusb1 udev ]
+  propagatedBuildInputs = lib.optionals stdenv.isLinux [ libusb1 udev ]
     ++ lib.optionals stdenv.isDarwin (with darwin.apple_sdk.frameworks; [ AppKit CoreFoundation IOKit ]);
 
   # Fix the USB backend library lookup

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

···
 , async-timeout
 , buildPythonPackage
 , fetchFromGitHub
-, pytestCheckHook
-, pytest_7
+, pytest7CheckHook
 , pythonAtLeast
 , pythonOlder
 , pytest-aiohttp
···
     aiohttp-wsgi
     pytest-aiohttp
     pytest-asyncio
-    (pytestCheckHook.override { pytest = pytest_7; })
+    pytest7CheckHook
   ];
 
   pytestFlagsArray = [

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

···
 
 buildPythonPackage rec {
   pname = "hypothesis";
-  version = "6.98.17";
+  version = "6.99.12";
   pyproject = true;
 
   disabled = pythonOlder "3.7";
···
     owner = "HypothesisWorks";
     repo = "hypothesis";
     rev = "hypothesis-python-${version}";
-    hash = "sha256-2knFmaa334vFo8bbLCmrWAXRDXFcC+GPRqj7RG3FqEQ=";
+    hash = "sha256-0nzjRDv4L3bxxnC0lBY5S7FP9CFhyzHzNchWXoX91Zg=";
   };
 
   # I tried to package sphinx-selective-exclude, but it throws

pkgs/development/python-modules/in-n-out/default.nix

···
 { lib
 , buildPythonPackage
-, cython_3
+, cython
 , fetchPypi
 , future
 , pytestCheckHook
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
     hatchling
     hatch-vcs
   ];

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

···
 # Test dependencies
 , pickleshare
 , pytest-asyncio
-, pytestCheckHook
-, pytest_7
+, pytest7CheckHook
 , testpath
 }:
 
···
   nativeCheckInputs = [
     pickleshare
     pytest-asyncio
-    (pytestCheckHook.override { pytest = pytest_7; })
+    pytest7CheckHook
     testpath
   ];
 

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

···
 , jsonschema
 , jupyterlab-widgets
 , lib
-, pytestCheckHook
+, pytest7CheckHook
 , pytz
 , traitlets
 , widgetsnbextension
···
   nativeCheckInputs = [
     ipykernel
     jsonschema
-    pytestCheckHook
+    pytest7CheckHook
     pytz
-  ];
-
-  pytestFlagsArray = [
-    # pytest.PytestRemovedIn8Warning: Support for nose tests is deprecated and will be removed in a future release.
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
   ];
 
   meta = {

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

···
     "--ignore=tests/benchmark/" # requires pytest-benchmark
     "--ignore=tests/integration/" # pulls in 10 other packages
     "--ignore=tests/unit/profiles/test_black.py" # causes infinite recursion to include black
-    # pytest.PytestRemovedIn8Warning: Passing None has been deprecated.
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
   ];
 
   disabledTests = [
···
     "test_value_assignment_list"
     # profiles not available
     "test_isort_supports_shared_profiles_issue_970"
+    # https://github.com/PyCQA/isort/issues/2234
+    "test_isort_should_warn_on_empty_custom_config_issue_1433"
   ];
 
   meta = with lib; {

pkgs/development/python-modules/json-tricks/default.nix

···
 , fetchFromGitHub
 , buildPythonPackage
 , pythonOlder
-, pytestCheckHook
+, pytest7CheckHook
 , numpy
 , pandas
 , pytz
···
     numpy
     pandas
     pytz
-    pytestCheckHook
-  ];
-
-  pytestFlagsArray = [
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
+    pytest7CheckHook
   ];
 
   pythonImportsCheck = [

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

···
 { lib, stdenv
 , buildPythonPackage, fetchFromGitHub, fetchpatch
-, pkg-config, cython, docutils
+, pkg-config, cython_0, docutils
 , kivy-garden
 , mesa, mtdev, SDL2, SDL2_image, SDL2_ttf, SDL2_mixer
 , Accelerate, ApplicationServices, AVFoundation, libcxx
···
 
   nativeBuildInputs = [
     pkg-config
-    cython
+    cython_0
     docutils
   ];
 

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

···
 , pycurl
 , pymongo
   #, pyro4
-, pytestCheckHook
+, pytest7CheckHook
 , pythonOlder
 , pyyaml
 , redis
···
   nativeCheckInputs = [
     case
     hypothesis
-    pytestCheckHook
+    pytest7CheckHook
   ] ++ lib.flatten (builtins.attrValues passthru.optional-dependencies);
-
-  pytestFlagsArray = [
-    # pytest.PytestRemovedIn8Warning: Support for nose tests is deprecated and will be removed in a future release.
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
-  ];
 
   pythonImportsCheck = [
     "kombu"

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

···
     hash = "sha256-NKrxv5a5gkgpNG7yViTKYBYnU249taWl6fkPJa7/Rzo=";
   };
 
+  postPatch = ''
+    substituteInPlace ./kubernetes/base/config/kube_config_test.py \
+      --replace-fail assertEquals assertEqual
+  '';
+
   propagatedBuildInputs = [
     adal
     certifi

pkgs/development/python-modules/langchain-core/default.nix

···
 
 buildPythonPackage rec {
   pname = "langchain-core";
-  version = "0.1.32";
+  version = "0.1.33";
   pyproject = true;
 
   disabled = pythonOlder "3.8";
···
   src = fetchPypi {
     pname = "langchain_core";
     inherit version;
-    hash = "sha256-1iaDvsvyD1HxKHV5GgQjIPReqgyHomfTC8A7waB/XsI=";
+    hash = "sha256-VF7/Peg8xYIxvSsMbWcjI/wgd7lNMmuhoyGRGK8dGmY=";
   };
 
   pythonRelaxDeps = [
     "langsmith"
+    "packaging"
   ];
 
   nativeBuildInputs = [

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

···
 , stdenv
 , buildPythonPackage
 , cmake
-, cython_3
+, cython
 , fetchFromGitHub
 , pytestCheckHook
 , pythonOlder
···
 
   nativeBuildInputs = [
     cmake
-    cython_3
+    cython
     scikit-build
   ];
 

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

···
 , buildPythonPackage
 , fetchFromGitHub
 , cmake
-, cython
+, cython_0
 , numpy
 , six
 , nose
···
 
   nativeBuildInputs = [
     cmake
+    cython_0
   ] ++ lib.optionals cudaSupport [
     addOpenGLRunpath
   ];
 
 
   buildInputs = [
-    cython
     nose
   ];
 

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

···
 , buildPythonPackage
 , fetchFromGitHub
 , pytest-xdist
-, pytestCheckHook
+, pytest7CheckHook
 , pythonOlder
 , setuptools
 }:
···
 
   nativeCheckInputs = [
     pytest-xdist
-    pytestCheckHook
-  ];
-
-  pytestFlagsArray = [
-    # pytest.PytestRemovedIn8Warning: Support for nose tests is deprecated and will be removed in a future release.
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
+    pytest7CheckHook
   ];
 
   disabledTests = [

pkgs/development/python-modules/lightning-utilities/default.nix

···
 
 # tests
 , pytest-timeout
-, pytestCheckHook
-, pytest_7
+, pytest7CheckHook
 }:
 
 buildPythonPackage rec {
···
 
   nativeCheckInputs = [
     pytest-timeout
-    (pytestCheckHook.override { pytest = pytest_7; })
+    pytest7CheckHook
   ];
 
   disabledTests = [

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

···
 
 buildPythonPackage rec {
   pname = "limits";
-  version = "3.9.0";
+  version = "3.10.1";
   pyproject = true;
 
   disabled = pythonOlder "3.7";
···
     postFetch = ''
       rm "$out/limits/_version.py"
     '';
-    hash = "sha256-X4nf9ifhJjTNKnQuAxRNK9j/MzfAC58kv+19zMWtKg8=";
+    hash = "sha256-Ax0P9rYTPOrhtOw7FLElSNTGQ3WWCboM3FodTOGZWu8=";
   };
 
   postPatch = ''

pkgs/development/python-modules/line-profiler/default.nix

···
 { lib
 , buildPythonPackage
 , fetchPypi
-, cython_3
+, cython
 , isPyPy
 , ipython
 , scikit-build
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
     cmake
     scikit-build
   ];

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

···
 , buildPythonPackage
 , pythonOlder
 , fetchFromGitHub
-, cython_3
+, cython
 , fuse
 , pkg-config
 , pytestCheckHook
···
     hash = "sha256-6/iW5eHmX6ODVPLFkOo3bN9yW8ixqy2MHwQ2r9FA0iI=";
   };
 
-  nativeBuildInputs = [ cython_3 pkg-config setuptools ];
+  nativeBuildInputs = [ cython pkg-config setuptools ];
 
   buildInputs = [ fuse ];
 

pkgs/development/python-modules/logical-unification/default.nix

···
 { lib
 , buildPythonPackage
 , fetchFromGitHub
+, pythonAtLeast
 , toolz
 , multipledispatch
 , py
···
     pytestCheckHook
     pytest-html
     pytest-benchmark  # Needed for the `--benchmark-skip` flag
+  ];
+
+  disabledTests = lib.optionals (pythonAtLeast "3.12") [
+    # Failed: DID NOT RAISE <class 'RecursionError'>
+    "test_reify_recursion_limit"
   ];
 
   pytestFlagsArray = [

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

···
 { lib
 , buildPythonPackage
-, cython_3
+, cython
 , fetchPypi
 , pythonOlder
 , setuptools
···
   };
 
   build-system = [
-    cython_3
+    cython
     setuptools
   ];
 

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

···
 , fetchFromGitHub
 
 # build-system
-, cython_3
+, cython
 , setuptools
 
 # native dependencies
···
   nativeBuildInputs = [
     libxml2.dev
     libxslt.dev
-    cython_3
+    cython
     setuptools
    ] ++ lib.optionals stdenv.isDarwin [
     xcodebuild

pkgs/development/python-modules/lz4/default.nix

···
 , pytestCheckHook
 , python
 , pythonOlder
+, setuptools
 , setuptools-scm
 }:
 
 buildPythonPackage rec {
-  pname = "python-lz4";
+  pname = "lz4";
   version = "4.3.3";
-  format = "setuptools";
+  pyproject = true;
 
   disabled = pythonOlder "3.5";
 
   # get full repository in order to run tests
   src = fetchFromGitHub {
-    owner = pname;
-    repo = pname;
+    owner = "python-lz4";
+    repo = "python-lz4";
     rev = "refs/tags/v${version}";
     hash = "sha256-ZvGUkb9DoheYY2/sejUhxgh2lS5eoBrFCXR4E0IcFcs=";
   };
···
     sed -i '/pytest-cov/d' setup.py
   '';
 
-  nativeBuildInputs = [
+  build-system = [
     pkgconfig
     setuptools-scm
+    setuptools
   ];
 
   pythonImportsCheck = [
···
   ];
 
   # for lz4.steam
-  PYLZ4_EXPERIMENTAL = true;
+  env.PYLZ4_EXPERIMENTAL = true;
 
   # prevent local lz4 directory from getting imported as it lacks native extensions
   preCheck = ''

pkgs/development/python-modules/marshmallow-enum/default.nix

···
 { lib
 , buildPythonPackage
 , fetchFromGitHub
+, setuptools
 , marshmallow
-, pytestCheckHook
-, isPy27
-, enum34
+, pytest7CheckHook
 }:
 
 buildPythonPackage rec {
   pname = "marshmallow-enum";
   version = "1.5.1";
-  format = "setuptools";
+  pyproject = true;
 
   src = fetchFromGitHub {
     owner = "justanr";
···
     sed -i '/addopts/d' tox.ini
   '';
 
-  propagatedBuildInputs = [
-    marshmallow
-  ] ++ lib.optionals isPy27 [ enum34 ];
-
-  nativeCheckInputs = [
-    pytestCheckHook
+  build-system = [
+    setuptools
   ];
 
-  pytestFlagsArray = [
-    # pytest.PytestRemovedIn8Warning: Support for nose tests is deprecated and will be removed in a future release.
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
+  dependencies = [
+    marshmallow
   ];
 
-  disabledTests = [
-    "test_custom_error_in_deserialize_by_name"
-    "test_custom_error_in_deserialize_by_value"
+  nativeCheckInputs = [
+    pytest7CheckHook
   ];
 
   meta = with lib; {

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

···
 , fetchpatch
 , llvmPackages
 , zlib
-, cython
+, cython_0
 , oldest-supported-numpy
 , setuptools
 , wheel
···
   ];
 
   nativeBuildInputs = [
-    cython
+    cython_0
     oldest-supported-numpy
     setuptools
     wheel

pkgs/development/python-modules/memory-allocator/default.nix

···
 { lib
 , fetchPypi
 , buildPythonPackage
-, cython_3
+, cython
 }:
 
 buildPythonPackage rec {
···
     hash = "sha256-E4BcKuHAG3SJ+rXo6sk2FmK08sAkEuNlLuzkj/aVMWI=";
   };
 
-  propagatedBuildInputs = [ cython_3 ];
+  propagatedBuildInputs = [ cython ];
 
   pythonImportsCheck = [ "memory_allocator" ];
 

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

···
 , buildPythonPackage
 , fetchPypi
 , substituteAll
+
+# build-system
+, setuptools
+, setuptools-scm
+, pythonRelaxDepsHook
+
+# dependencies
+, packaging
+
+# native dependencies
 , portmidi
+
+# optional-dependencies
+, pygame
 , python-rtmidi
+, rtmidi-python
+
+# tests
 , pytestCheckHook
 , pythonOlder
-, setuptools
-, setuptools-scm
+
 }:
 
 buildPythonPackage rec {
···
 
   src = fetchPypi {
     inherit pname version;
-    sha256 = "sha256-Ouootu1zD3N9WxLaNXjevp3FAFj6Nw/pzt7ZGJtnw0g=";
+    hash = "sha256-Ouootu1zD3N9WxLaNXjevp3FAFj6Nw/pzt7ZGJtnw0g=";
   };
 
   patches = [
···
     })
   ];
 
-  nativeBuildInputs = [
+  build-system = [
     setuptools
     setuptools-scm
+    pythonRelaxDepsHook
   ];
 
-  propagatedBuildInputs = [
-    python-rtmidi
+  pythonRelaxDeps = [
+    "packaging"
+  ];
+
+  dependencies = [
+    packaging
   ];
+
+  optional-dependencies = {
+    ports-pygame = [ pygame ];
+    ports-rtmidi = [ python-rtmidi ];
+    ports-rtmidi-python = [ rtmidi-python ];
+  };
 
   nativeCheckInputs = [
     pytestCheckHook

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

···
     setuptools
   ];
   pythonRemoveDeps = [ "shap" ];
-  pythonRelaxDeps = [ "pytz" "pyarrow" ];
+  pythonRelaxDeps = [
+    "packaging"
+    "pytz"
+    "pyarrow"
+  ];
 
   propagatedBuildInputs = [
     alembic

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

···
 , buildPythonPackage
 , fetchFromGitHub
 , future
-, pytestCheckHook
+, pytest7CheckHook
 }:
 
 buildPythonPackage rec {
···
   ];
 
   nativeCheckInputs = [
-    pytestCheckHook
+    pytest7CheckHook
   ];
 
   postPatch = ''

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

···
 , fetchFromGitHub
 
 # build-system
-, cython_3
+, cython
 
 # optional
 , numpy
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
   ];
 
   postPatch = ''
···
     pytest-cov # uses cov markers
     pytestCheckHook
   ] ++ passthru.optional-dependencies.arrays;
-
-  pytestFlagsArray = [
-    # pytest.PytestRemovedIn8Warning: Passing None has been deprecated.
-    "--deselect=ndindex/tests/test_ndindex.py::test_ndindex_invalid"
-  ];
 
   meta = with lib; {
     description = "";

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

···
 { lib
 , buildPythonPackage
 , fetchPypi
+, pythonAtLeast
 , pythonOlder
 , hatchling
 , hatch-vcs
···
 , pytest-doctestplus
 , pytest-httpserver
 , pytest-xdist
-, pytestCheckHook
+, pytest7CheckHook
 }:
 
 buildPythonPackage rec {
···
     pytest-doctestplus
     pytest-httpserver
     pytest-xdist
-    pytestCheckHook
+    pytest7CheckHook
   ] ++ passthru.optional-dependencies.all;
 
   preCheck = ''
     export PATH=$out/bin:$PATH
   '';
+
+  disabledTestPaths = lib.optionals (pythonAtLeast "3.12") [
+    # uses distutils
+    "nisext/tests/test_sexts.py"
+  ];
 
   meta = with lib; {
     homepage = "https://nipy.org/nibabel";

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

···
 , fetchPypi
 
 # build-system
-, cython_3
+, cython
 , meson-python
 , ninja
 , setuptools
···
   '';
 
   build-system = [
-    cython_3
+    cython
     meson-python
     setuptools
     ninja

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

···
 { lib
 , buildPythonPackage
 , fetchPypi
-, pytestCheckHook
+, pytest7CheckHook
 , six
 }:
 
···
   ];
 
   nativeCheckInputs = [
-    pytestCheckHook
-  ];
-
-  pytestFlagsArray = [
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
+    pytest7CheckHook
   ];
 
   pythonImportsCheck = [

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

···
 { lib
 , buildPythonPackage
 , fetchPypi
-, pytestCheckHook
+, pytest7CheckHook
 , pythonOlder
 , six
 }:
···
   ];
 
   nativeCheckInputs = [
-    pytestCheckHook
-  ];
-
-  pytestFlagsArray = [
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
+    pytest7CheckHook
   ];
 
   pythonImportsCheck = [

pkgs/development/python-modules/notus-scanner/default.nix

···
   };
 
   pythonRelaxDeps = [
+    "packaging"
     "python-gnupg"
   ];
 

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

···
 , writeTextFile
 
 # build-system
-, cython_3
+, cython
 , gfortran
 , meson-python
 , mesonEmulatorHook
···
   '';
 
   nativeBuildInputs = [
-    cython_3
+    cython
     gfortran
     meson-python
     pkg-config

pkgs/development/python-modules/openapi-core/default.nix

···
 , parse
 , poetry-core
 , pytest-aiohttp
-, pytestCheckHook
-, pytest_7
+, pytest7CheckHook
 , pythonOlder
 , responses
 , requests
···
   nativeCheckInputs = [
     httpx
     pytest-aiohttp
-    (pytestCheckHook.override { pytest = pytest_7; })
+    pytest7CheckHook
     responses
     webob
   ] ++ lib.flatten (lib.attrValues passthru.optional-dependencies);

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

···
 , lxml
 , pandas
 , pillow
-, pytestCheckHook
+, pytest7CheckHook
 , pythonAtLeast
 , pythonOlder
 , setuptools
···
     lxml
     pandas
     pillow
-    pytestCheckHook
+    pytest7CheckHook
   ];
 
   pytestFlagsArray = [

pkgs/development/python-modules/openstep-plist/default.nix

···
 { lib
 , buildPythonPackage
 , fetchPypi
+, cython
+, setuptools
 , setuptools-scm
 , pytestCheckHook
-, cython
-, pythonImportsCheckHook
 }:
 
 buildPythonPackage rec {
   pname = "openstep-plist";
-  version = "0.3.0.post1";
-  format = "setuptools";
+  version = "0.3.1";
+  pyproject = true;
 
   src = fetchPypi {
     pname = "openstep_plist";
     inherit version;
-    hash = "sha256-GK/z1e3tnr++3+ukRKPASDJGl7+KObsENhwN1Tv+qws=";
-    extension = "zip";
+    hash = "sha256-Au6taO+57Ost4slTlwc86A/ImFXZerZRab2S/ENo5PI=";
   };
 
-  nativeBuildInputs = [ setuptools-scm cython ];
-  nativeCheckInputs = [ pytestCheckHook ];
-  pythonImportsCheck = [ "openstep_plist" ];
+  build-system = [
+    cython
+    setuptools
+    setuptools-scm
+  ];
+
+  nativeCheckInputs = [
+    pytestCheckHook
+  ];
+
+  pythonImportsCheck = [
+    "openstep_plist"
+  ];
 
   meta = {
+    changelog = "https://github.com/fonttools/openstep-plist/releases/tag/v${version}";
     description = "Parser for the 'old style' OpenStep property list format also known as ASCII plist";
     homepage = "https://github.com/fonttools/openstep-plist";
     license = lib.licenses.mit;

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

···
 { lib
 , buildPythonPackage
 , cryptography
-, cython_3
+, cython
 , fetchPypi
 , pythonOlder
 , setuptools
···
   };
 
   build-system = [
-    cython_3
+    cython
     setuptools
     wheel
   ];

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

···
-{ lib, buildPythonPackage, fetchFromSourcehut, pythonOlder
-, cmake, cython, alure2, typing-extensions
+{ lib
+, buildPythonPackage
+, fetchFromSourcehut
+, pythonOlder
+, cmake
+, cython_0
+, setuptools
+, alure2
+, typing-extensions
 }:
 
 buildPythonPackage rec {
   pname = "palace";
   version = "0.2.5";
-  format = "setuptools";
+  pyproject = true;
+
   disabled = pythonOlder "3.6";
 
   src = fetchFromSourcehut {
···
       --replace IMPORTED_LOCATION_NOCONFIG IMPORTED_LOCATION_RELEASE
   '';
 
+  build-system = [
+    cmake
+    cython_0
+    setuptools
+  ];
+
   dontUseCmakeConfigure = true;
 
-  nativeBuildInputs = [ cmake ];
-  buildInputs = [ cython ];
-  propagatedBuildInputs = [ alure2 ] ++ lib.optionals (pythonOlder "3.8") [
-    typing-extensions
+  propagatedBuildInputs = [
+    alure2
   ];
 
   doCheck = false; # FIXME: tests need an audio device
+
   pythonImportsCheck = [ "palace" ];
 
   meta = with lib; {

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

···
 , pythonOlder
 
 # build-system
-, cython_3
+, cython
 , meson-python
 , meson
 , oldest-supported-numpy
···
   '';
 
   nativeBuildInputs = [
-    cython_3
+    cython
     meson-python
     meson
     numpy

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

···
     "papermill"
   ];
 
-  pytestFlagsArray = [
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
-  ];
-
-  disabledTests = lib.optionals stdenv.isDarwin [
+  disabledTests = [
+    # pytest 8 compat
+    "test_read_with_valid_file_extension"
+  ] ++ lib.optionals stdenv.isDarwin [
     # might fail due to the sandbox
     "test_end2end_autosave_slow_notebook"
   ];

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

···
       url = "https://github.com/paramiko/paramiko/commit/18e38b99f515056071fb27b9c1a4f472005c324a.patch";
       hash = "sha256-bPDghPeLo3NiOg+JwD5CJRRLv2VEqmSx1rOF2Tf8ZDA=";
     })
+    (fetchpatch {
+      name = "paramiko-pytest8-compat.patch";
+      url = "https://github.com/paramiko/paramiko/commit/d71046151d9904df467ff72709585cde39cdd4ca.patch";
+      hash = "sha256-4CTIZ9BmzRdh+HOwxSzfM9wkUGJOnndctK5swqqsIvU=";
+    })
   ];
 
   propagatedBuildInputs = [
···
     mock
     pytestCheckHook
   ] ++ lib.flatten (builtins.attrValues passthru.optional-dependencies);
-
-  pytestFlagsArray = [
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
-  ];
 
   disabledTestPaths = [
     # disable tests that require pytest-relaxed, which is broken

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

···
 { lib
 , buildPythonPackage
 , fetchPypi
+, pythonAtLeast
 }:
 
 buildPythonPackage rec {
   pname = "pathtools";
   version = "0.1.2";
   format = "setuptools";
+
+  # imp and distuils usage, last commit in 2016
+  disabled = pythonAtLeast "3.12";
 
   src = fetchPypi {
     inherit pname version;

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

···
     uncertainties
   ];
 
+  pytestFlagsArray = [
+    "--benchmark-disable"
+  ];
+
   preCheck = ''
     export HOME=$(mktemp -d)
   '';
···
   disabledTests = [
     # https://github.com/hgrecco/pint/issues/1898
     "test_load_definitions_stage_2"
+    # pytest8 deprecation
+    "test_nonnumeric_magnitudes"
   ];
 
   meta = with lib; {

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

···
 , urllib3
 , pythonOlder
 , python
-, pytestCheckHook
+, pytest7CheckHook
 }:
 
 buildPythonPackage rec {
···
 
   nativeCheckInputs = [
     matplotlib
-    pytestCheckHook
-  ];
-
-  pytestFlagsArray = [
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
+    pytest7CheckHook
   ];
 
   disabledTests= [

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

···
 , jsonschema
 , pytest-asyncio
 , pytest-httpbin
-, pytestCheckHook
-, pytest_7
+, pytest7CheckHook
 , pythonOlder
 , requests
 , xmltodict
···
   nativeCheckInputs = [
     pytest-asyncio
     pytest-httpbin
-    (pytestCheckHook.override { pytest = pytest_7; })
+    pytest7CheckHook
   ];
 
   pythonImportsCheck = [

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

···
 , mpfr
 , libmpc
 , ppl
-, cython_3
+, cython
 , cysignals
 , gmpy2
 , sphinx
···
   ];
 
   propagatedBuildInputs = [
-    cython_3
+    cython
     cysignals
     gmpy2
   ];

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

···
 , fetchPypi
 , buildPythonPackage
 , primecount
-, cython_3
+, cython
 , cysignals
 }:
 
···
 
   buildInputs = [ primecount ];
 
-  propagatedBuildInputs = [ cython_3 cysignals ];
+  propagatedBuildInputs = [ cython cysignals ];
 
   # depends on pytest-cython for "pytest --doctest-cython"
   doCheck = false;

pkgs/development/python-modules/protobuf/3.nix

···
   #
   postPatch = ''
     sed -i "/extra_compile_args.append('-std=c++14')/d" setup.py
+
+    substituteInPlace google/protobuf/internal/json_format_test.py \
+      --replace-fail assertRaisesRegexp assertRaisesRegex
   '';
 
   nativeBuildInputs = lib.optional isPyPy tzdata;

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

···
   #
   postPatch = ''
     sed -i "/extra_compile_args.append('-std=c++14')/d" setup.py
+
+    # The former function has been renamed into the latter in Python 3.12.
+    # Does not apply to all protobuf versions, hence --replace-warn.
+    substituteInPlace google/protobuf/internal/json_format_test.py \
+      --replace-warn assertRaisesRegexp assertRaisesRegex
   '';
 
   nativeBuildInputs = lib.optional isPyPy tzdata;

pkgs/development/python-modules/psd-tools/default.nix

···
     hash = "sha256-HUFJ2FP9WGcG9pkukS2LHIgPYFRAXAneiVK6VfYQ+zU=";
   };
 
+  postPatch = ''
+    sed -i "/addopts =/d" pyproject.toml
+  '';
+
   nativeBuildInputs = [
     cython
   ];

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

···
 , typing-extensions
 
 # psycopg-c
-, cython_3
+, cython
 , tomli
 
 # docs
···
     '';
 
     nativeBuildInputs = [
-      cython_3
+      cython
       postgresql
       setuptools
       tomli

pkgs/development/python-modules/py-libzfs/default.nix

···
 , stdenv
 , buildPythonPackage
 , fetchFromGitHub
-, cython
+, cython_0
 , zfs
 }:
 
···
     hash = "sha256-vBLbjP1gQEQNsTLc2W6uRzCFHQXZp+jGiwE0Pe8VTuw=";
   };
 
-  nativeBuildInputs = [ cython ];
+  nativeBuildInputs = [ cython_0 ];
   buildInputs = [ zfs ];
 
   # Passing CFLAGS in configureFlags does not work, see https://github.com/truenas/py-libzfs/issues/107

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

···
 , cffi
 , cloudpickle
 , cmake
-, cython
+, cython_0
 , fsspec
 , hypothesis
 , numpy
···
 
   nativeBuildInputs = [
     cmake
-    cython
+    cython_0
     pkg-config
     setuptools
     setuptools-scm

pkgs/development/python-modules/pydantic/1.nix

···
 { lib
 , buildPythonPackage
-, cython
+, cython_0
 , email-validator
 , fetchFromGitHub
 , pytest-mock
-, pytestCheckHook
-, pytest_7
+, pytest7CheckHook
 , python-dotenv
 , pythonAtLeast
 , pythonOlder
···
 
   nativeBuildInputs = [
     setuptools
-    cython
+    cython_0
   ];
 
   buildInputs = lib.optionals (pythonOlder "3.9") [
···
 
   nativeCheckInputs = [
     pytest-mock
-    (pytestCheckHook.override { pytest = pytest_7; })
+    pytest7CheckHook
   ] ++ lib.flatten (lib.attrValues passthru.optional-dependencies);
 
   pytestFlagsArray = [

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

···
 { lib
-, stdenv
 , buildPythonPackage
 , fetchFromGitHub
 , invoke
 , mock
-, pytestCheckHook
+, pytest7CheckHook
 , pythonOlder
 , setuptools
 , sphinx-rtd-theme
···
   nativeCheckInputs = [
     invoke
     mock
-    pytestCheckHook
+    pytest7CheckHook
     sphinx-rtd-theme
   ];
 

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

···
 { lib, buildPythonPackage, fetchPypi
-, fftw, fftwFloat, fftwLongDouble, numpy, scipy, cython, dask }:
+, fftw, fftwFloat, fftwLongDouble, numpy, scipy, cython_0, dask }:
 
 buildPythonPackage rec {
   version = "0.13.1";
···
 
   buildInputs = [ fftw fftwFloat fftwLongDouble];
 
-  propagatedBuildInputs = [ numpy scipy cython dask ];
+  propagatedBuildInputs = [ numpy scipy cython_0 dask ];
 
   # Tests cannot import pyfftw. pyfftw works fine though.
   doCheck = false;

pkgs/development/python-modules/pyfuse3/default.nix

···
 , buildPythonPackage
 , pythonOlder
 , fetchFromGitHub
-, cython_3
+, cython
 , pkg-config
 , setuptools
 , fuse3
···
   '';
 
   nativeBuildInputs = [
-    cython_3
+    cython
     pkg-config
     setuptools
   ];

pkgs/development/python-modules/pygame-sdl2/default.nix

···
 { lib, buildPythonPackage, fetchurl, isPy27, renpy
-, cython, SDL2, SDL2_image, SDL2_ttf, SDL2_mixer, libjpeg, libpng }:
+, cython_0, SDL2, SDL2_image, SDL2_ttf, SDL2_mixer, libjpeg, libpng }:
 
 buildPythonPackage rec {
   pname = "pygame-sdl2";
···
   '';
 
   nativeBuildInputs = [
-    SDL2.dev cython
+    SDL2.dev cython_0
   ];
 
   buildInputs = [

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

···
 , pythonOlder
 
 # build-system
-, cython_3
+, cython
 , setuptools
 , pkg-config
 
···
   '';
 
   nativeBuildInputs = [
-    cython_3
+    cython
     pkg-config
     SDL2
     setuptools

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

···
 , python
 , geos_3_11
 , pytestCheckHook
-, cython
+, cython_0
 , numpy
 }:
 
···
 
   nativeBuildInputs = [
     geos_3_11 # for geos-config
-    cython
+    cython_0
   ];
 
   propagatedBuildInputs = [

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

···
 , fetchPypi
 
 # build-system
-, cython_3
+, cython
 , numpy
 , setuptools
 
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
     numpy
     setuptools
   ];

pkgs/development/python-modules/pylibjpeg-libjpeg/default.nix

···
 , fetchFromGitHub
 , pythonOlder
 , pytestCheckHook
-, cython_3
+, cython
 , poetry-core
 , setuptools
 , numpy
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
     poetry-core
     setuptools
   ];

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

···
 , isPyPy
 , pythonAtLeast
 , liblo
-, cython
+, cython_0
 }:
 
 buildPythonPackage rec {
···
     })
   ];
 
-  buildInputs = [ liblo cython ];
+  build-system = [ cython_0 ];
+
+  buildInputs = [ liblo ];
 
   meta = with lib; {
     homepage = "https://das.nasophon.de/pyliblo/";

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

···
 , py
 , pytest-timeout
 , pytest-xdist
-, pytestCheckHook
+, pytest7CheckHook
 }:
 
 buildPythonPackage rec {
···
     py
     pytest-timeout
     pytest-xdist
-    pytestCheckHook
+    pytest7CheckHook
     requests
     typing-extensions
   ];

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

···
-{ lib, buildPythonPackage, fetchPypi, pytest }:
+{ lib
+, buildPythonPackage
+, fetchPypi
+, setuptools
+, pytest7CheckHook
+}:
 
 buildPythonPackage rec {
   pname = "pymeeus";
   version = "0.5.12";
+  pyproject = true;
 
   src = fetchPypi {
     pname = "PyMeeus";
···
     hash = "sha256-VI9xhr2LlsvAac9kmo6ON33OSax0SGcJhJ/mOpnK1oQ=";
   };
 
-  nativeCheckInputs = [ pytest ];
+  build-system = [
+    setuptools
+  ];
 
-  checkPhase = ''
-    pytest .
-  '';
+  nativeCheckInputs = [
+    pytest7CheckHook
+  ];
 
   meta = with lib; {
     homepage = "https://github.com/architest/pymeeus";

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

···
 , fetchpatch
 , pydicom
 , pyfakefs
-, pytestCheckHook
+, pytest7CheckHook
 , sqlalchemy
 , pythonOlder
 }:
···
 
   nativeCheckInputs = [
     pyfakefs
-    pytestCheckHook
+    pytest7CheckHook
     sqlalchemy
   ];
 

pkgs/development/python-modules/pyopengl-accelerate/default.nix

···
 , buildPythonPackage
 , pythonAtLeast
 , fetchPypi
-, cython_3
+, cython
 , numpy
 , setuptools
 , wheel
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
     numpy
     setuptools
     wheel

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

···
 { lib
 , stdenv
 , buildPythonPackage
-, cython_3
+, cython
 , fetchFromGitHub
 , libiconv
 , pandas
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
   ];
 
   buildInputs = [

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

···
 , contexttimer
 , setuptools
 , versioneer
-, cython
+, cython_0
 , numpy
 , pytestCheckHook
 , pythonOlder
···
   '';
 
   nativeBuildInputs = [
-    cython
+    cython_0
     setuptools
     versioneer
   ];

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

···
 , bzip2
 , bcftools
 , curl
-, cython_3
+, cython
 , htslib
 , libdeflate
 , xz
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
     samtools
     setuptools
   ];

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

···
 , setuptools-scm
 , pytest-asyncio
 , pytest-cases
-, pytestCheckHook
-, pytest_7
+, pytest7CheckHook
 , pytz
 }:
 
···
   nativeCheckInputs = [
     pytest-asyncio
     pytest-cases
-    (pytestCheckHook.override { pytest = pytest_7; })
+    pytest7CheckHook
   ];
 
   pythonImportsCheck = [

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

···
 { lib
 , python
-, fetchPypi
 , fetchFromGitHub
-, fetchpatch
+, fetchpatch2
 , buildPythonPackage
 , cython
+, setuptools
 , libstemmer
  }:
 
 buildPythonPackage rec {
   pname = "pystemmer";
-  version = "2.2.0";
-  format = "setuptools";
+  version = "2.2.0.1";
+  pyproejct = true;
 
   src = fetchFromGitHub {
     owner = "snowballstem";
     repo = "pystemmer";
     rev = "refs/tags/v${version}";
-    hash = "sha256-bJVFeO7XP+aZ2nowQiuws5ziL/FmS1eaOllW6QxA70U=";
+    hash = "sha256-ngPx95ybgJmndpNPBwCa3BCNsozRg+dlEw+nhlIwI58=";
   };
 
-  nativeBuildInputs = [ cython ];
-
   patches = [
-    (fetchpatch {
-      # Allow building with system libstemmer
-      url = "https://github.com/snowballstem/pystemmer/commit/2f52b4b2ff113fe6c33cebe14ed4fd4388bb1742.patch";
-      hash = "sha256-JqR/DUmABgWaq23CNjoKSasL0mNhM2QuU986mouK6A8=";
+    (fetchpatch2 {
+      # relax cython constraint
+      name = "pystemmer-relax-cython.patch";
+      url = "https://github.com/snowballstem/pystemmer/commit/d3d423dc877b4f49e0ab1776f7edaff37feb6799.patch";
+      hash = "sha256-9K6gy/cLFPfW82XYHVVPXUbQhf8XyB4NUi4YqNtyWcw=";
     })
-    (fetchpatch {
-      # Fix doctests
-      url = "https://github.com/snowballstem/pystemmer/commit/b2826f19fe8ba65238b5f3b4cee7096a698f048e.patch";
-      hash = "sha256-VTZydjYaJJ/KoHD4KbON36kZnkuAyO51H0Oeg6VXTqg=";
-    })
+  ];
+
+  build-system = [
+    cython
+    setuptools
   ];
 
   postConfigure = ''
···
 
   meta = with lib; {
     description = "Snowball stemming algorithms, for information retrieval";
+    downloadPage = "https://github.com/snowballstem/pystemmer";
     homepage = "http://snowball.tartarus.org/";
-    license = licenses.mit;
+    license = with licenses; [
+      bsd3
+      mit
+    ];
     platforms = platforms.unix;
   };
 }

pkgs/development/python-modules/pytest-asyncio/default.nix

···
 
 buildPythonPackage rec {
   pname = "pytest-asyncio";
-  version = "0.23.5.post1"; # N.B.: when updating, tests bleak and aioesphomeapi tests
+  version = "0.23.6"; # N.B.: when updating, tests bleak and aioesphomeapi tests
   pyproject = true;
 
   disabled = pythonOlder "3.8";
···
     owner = "pytest-dev";
     repo = "pytest-asyncio";
     rev = "refs/tags/v${version}";
-    hash = "sha256-k+EmbUptZB2ZLiygwY9WwFA4PNJA+9fEAZYu0xaPZSQ=";
+    hash = "sha256-+kyKcVzW05kqtLeC81rk3fJpOtyW3xSYshgl5gqIddE=";
   };
 
   outputs = [

pkgs/development/python-modules/pytest-bdd/default.nix

···
 { lib
 , buildPythonPackage
 , fetchFromGitHub
-, fetchpatch
 , mako
 , parse
 , parse-type
···
 
 buildPythonPackage rec {
   pname = "pytest-bdd";
-  version = "6.1.1";
+  version = "7.1.2";
   format = "pyproject";
 
   disabled = pythonOlder "3.7";
···
     owner = "pytest-dev";
     repo = pname;
     rev = "refs/tags/${version}";
-    hash = "sha256-+76jIgfDQPdIoesTr1+QUu8wmOnrdf4KT+TJr9F2Hqk=";
+    hash = "sha256-PC4VSsUU5qEFp/C/7OTgHINo8wmOo0w2d1Hpe0EnFzE=";
   };
-
-  patches = [
-    (fetchpatch {
-      name = "remove-setuptools.patch";
-      url = "https://github.com/pytest-dev/pytest-bdd/commit/5d8eda3a30b47d3bd27849884a851adafca765cb.patch";
-      hash = "sha256-G2WHaRKlQ9HINufh8wl7+ly7HfDGobMLzzlbwDwd+o8=";
-    })
-  ];
 
   nativeBuildInputs = [
     poetry-core

pkgs/development/python-modules/pytest-doctestplus/default.nix

···
 
 buildPythonPackage rec {
   pname = "pytest-doctestplus";
-  version = "1.2.0";
+  version = "1.2.1";
   format = "pyproject";
 
   disabled = pythonOlder "3.7";
 
   src = fetchPypi {
     inherit pname version;
-    hash = "sha256-xa12Oi+uXu5bZ4jPVedU1AQOxJsOIoj8ncmgFe+buTI=";
+    hash = "sha256-JHKoosjOo00vZfZJlUP663SO7LWcWXhS/ZiDm0cwdnk=";
   };
 
   postPatch = ''

pkgs/development/python-modules/pytest-factoryboy/default.nix

···
 
 buildPythonPackage rec {
   pname = "pytest-factoryboy";
-  version = "2.5.1";
+  version = "2.6.1";
   format = "pyproject";
 
   src = fetchFromGitHub {
     owner = "pytest-dev";
     repo = "pytest-factoryboy";
     rev = version;
-    sha256 = "sha256-zxgezo2PRBKs0mps0qdKWtBygunzlaxg8s9BoBaU1Ig=";
+    sha256 = "sha256-GYqYwtbmMWVqImVPPBbZNRJJGcbksUPsIbi6QuPRMco=";
   };
 
   nativeBuildInputs = [

pkgs/development/python-modules/pytest-snapshot/default.nix

···
 , packaging
 , pytest
 , setuptools-scm
-, pytestCheckHook
-, pytest_7
+, pytest7CheckHook
 , pythonOlder
 }:
 
···
 
   nativeCheckInputs = [
     # https://github.com/joseph-roitman/pytest-snapshot/issues/71
-    (pytestCheckHook.override { pytest = pytest_7; })
+    pytest7CheckHook
   ];
 
   pythonImportsCheck = [

pkgs/development/python-modules/pytest-unordered/default.nix

···
 , buildPythonPackage
 , fetchFromGitHub
 , pytest
-, pytest_7
-, pytestCheckHook
+, pytest7CheckHook
 }:
 
 buildPythonPackage rec {
···
 
   nativeCheckInputs = [
     # https://github.com/utapyngo/pytest-unordered/issues/15
-    (pytestCheckHook.override { pytest = pytest_7; })
+    pytest7CheckHook
   ];
 
   pythonImportsCheck = [

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

···
 
 buildPythonPackage rec {
   pname = "pytest";
-  version = "8.0.2";
+  version = "8.1.1";
   pyproject = true;
 
   src = fetchPypi {
     inherit pname version;
-    hash = "sha256-1AUdYjouC35RlgupYxk7Cc5trrl1mkUYRKIeTd7fwb0=";
+    hash = "sha256-rJeBQadZSJSIF9NgKXt6rg/LnW/2vJ7G1RS4XVplwEQ=";
   };
 
   outputs = [

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

···
 { lib
 , buildPythonPackage
-, cython_3
+, cython
 , fetchFromGitHub
 , msgpack
 , poetry-core
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
     setuptools
   ];
 

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

···
 { lib
 , buildPythonPackage
-, fetchFromGitHub
-, cython
+, cython_0
 , openems
 , csxcad
 , boost
···
   sourceRoot = "${src.name}/python";
 
   nativeBuildInputs = [
-    cython
+    cython_0
     boost
   ];
 

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

···
 , CoreMIDI
 , CoreServices
 , Foundation
-, cython_3
+, cython
 , fetchPypi
 , flake8
 , libjack2
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
     meson-python
     ninja
     pkg-config

pkgs/development/python-modules/python-zbar/0001-python-enum-fix-build-for-Python-3.11.patch

···
-From 64de7911d2938fc3601fec39c08008465b9d4f6f Mon Sep 17 00:00:00 2001
-From: Nick Cao <[e-mail]>
-Date: Tue, 7 Feb 2023 17:12:50 +0800
-Subject: [PATCH] python: enum: fix build for Python 3.11
-MIME-Version: 1.0
-Content-Type: text/plain; charset=UTF-8
-Content-Transfer-Encoding: 8bit
-
-Python 3.9 introduced Py_SET_SIZE function to set size instead of
-relying on Py_SIZE() as a macro [3.9].
-
-Python 3.10 started to encourage to use Py_SET_SIZE instead of
-assigning into return value of Py_SIZE [3.10].
-
-Python 3.11 flips the switch, turn Py_SIZE into a function [3.11],
-thus Py_SIZE(obj) will be a rvalue. We need to use Py_SET_SIZE
-to set size now.
-
-[3.9]: https://docs.python.org/3.9/c-api/structures.html#c.Py_SET_SIZE
-[3.10]: https://docs.python.org/3.10/c-api/structures.html#c.Py_SIZE
-[3.11]: https://docs.python.org/3.11/c-api/structures.html#c.Py_SIZE
-
-Adapted from https://github.com/mchehab/zbar/pull/231
-
-Signed-off-by: Đoàn Trần Công Danh <[e-mail]>
-Signed-off-by: Nick Cao <[e-mail]>
----
- python/enum.c | 8 ++++++++
- 1 file changed, 8 insertions(+)
-
-diff --git a/python/enum.c b/python/enum.c
-index dfe1b1e..4833a20 100644
---- a/python/enum.c
-+++ b/python/enum.c
-@@ -52,7 +52,11 @@ enumitem_new (PyTypeObject *type,
- 
-     /* we assume the "fast path" for a single-digit ints (see longobject.c) */
-     /* this also holds if we get a small_int preallocated long */
-+#if PY_VERSION_HEX >= 0x030900A4
-+    Py_SET_SIZE(&self->val, Py_SIZE(longval));
-+#else
-     Py_SIZE(&self->val) = Py_SIZE(longval);
-+#endif
-     self->val.ob_digit[0] = longval->ob_digit[0];
-     Py_DECREF(longval);
- #else
-@@ -143,7 +147,11 @@ zbarEnumItem_New (PyObject *byname,
- 
-     /* we assume the "fast path" for a single-digit ints (see longobject.c) */
-     /* this also holds if we get a small_int preallocated long */
-+#if PY_VERSION_HEX >= 0x030900A4
-+    Py_SET_SIZE(&self->val, Py_SIZE(longval));
-+#else
-     Py_SIZE(&self->val) = Py_SIZE(longval);
-+#endif
-     self->val.ob_digit[0] = longval->ob_digit[0];
-     Py_DECREF(longval);
- 
--- 
-2.39.1
-

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

···
 { lib
 , buildPythonPackage
 , fetchFromGitHub
+, pythonAtLeast
+, setuptools
 , pillow
 , zbar
 , pytestCheckHook
···
 buildPythonPackage rec {
   pname = "python-zbar";
   version = "0.23.93";
-  format = "setuptools";
+  pyproject = true;
+
+  # distutils usage in setup.py
+  disabled = pythonAtLeast "3.12";
 
   src = fetchFromGitHub {
     owner = "mchehab";
···
     hash = "sha256-6gOqMsmlYy6TK+iYPIBsCPAk8tYDliZYMYeTOidl4XQ=";
   };
 
-  patches = [
-    # python: enum: fix build for Python 3.11
-    # https://github.com/mchehab/zbar/pull/231
-    # the patch is reworked as it does not cleanly apply
-    ./0001-python-enum-fix-build-for-Python-3.11.patch
-  ];
+  postPatch = ''
+    cd python
+  '';
+
+  build-system = [ setuptools ];
 
-  propagatedBuildInputs = [ pillow ];
+  dependencies = [ pillow ];
 
   buildInputs = [ zbar ];
 
   nativeCheckInputs = [ pytestCheckHook ];
 
-  preBuild = ''
-    cd python
-  '';
-
   disabledTests = [
     #AssertionError: b'Y800' != 'Y800'
     "test_format"
···
     #Requires loading a recording device
     #zbar.SystemError: <zbar.Processor object at 0x7ffff615a680>
     "test_processing"
+    # Version too long?
+    # self.assertEqual(len(ver), 2)
+    "test_version"
   ];
 
   pythonImportsCheck = [ "zbar" ];

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

···
 , buildPythonPackage
 , pythonOlder
 , fetchFromGitHub
-, cython
+, cython_0
 , setuptools
 , libyaml
 , python
···
   };
 
   nativeBuildInputs = [
-    cython
+    cython_0
     setuptools
   ];
 

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

···
 , isPyPy
 
 # build-system
-, cython_3
+, cython
 , setuptools
 , setuptools-scm
 , packaging
···
   ] ++ (if isPyPy then [
     cffi
   ] else [
-    cython_3
+    cython
   ]);
 
   buildInputs = [

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

···
 , mock
 , py
 , pytest-asyncio
-, pytestCheckHook
+, pytest7CheckHook
 }:
 
 buildPythonPackage rec {
···
     mock
     py
     pytest-asyncio
-    pytestCheckHook
-  ];
-
-  pytestFlagsArray = [
-    # pytest.PytestRemovedIn8Warning: Passing None has been deprecated.
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
+    pytest7CheckHook
   ];
 
   meta = with lib; {

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

···
 , buildPythonPackage
 , cvxopt
 , cvxpy
-, cython
+, cython_0
 , fetchFromGitHub
 , ipython
 , matplotlib
···
   };
 
   nativeBuildInputs = [
-    cython
+    cython_0
   ];
 
   propagatedBuildInputs = [

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

···
 , buildPythonPackage
 , fetchFromGitHub
 , setuptools
-, pytestCheckHook
+, pytest7CheckHook
 , requests
 }:
 
···
   __darwinAllowLocalNetworking = true;
 
   nativeCheckInputs = [
-    pytestCheckHook
+    pytest7CheckHook
     requests
   ];
 

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

···
 , pythonOlder
 , fetchFromGitHub
 , cmake
-, cython_3
+, cython
 , ninja
 , scikit-build
 , setuptools
···
 
   nativeBuildInputs = [
     cmake
-    cython_3
+    cython
     ninja
     scikit-build
     setuptools

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

···
 , click
 , click-plugins
 , cligj
-, cython_3
+, cython
 , gdal
 , hypothesis
 , ipython
···
   ];
 
   nativeBuildInputs = [
-    cython_3
+    cython
     gdal
     numpy
     oldest-supported-numpy

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

···
 { lib
 , buildPythonPackage
 , fetchPypi
-, pytestCheckHook
+, pytest7CheckHook
 }:
 
 buildPythonPackage rec {
···
     hash = "sha256-QzTA/f401OiIzw7YVJaMnfFPClR9+Qmnf0Y0+f/mJuY=";
   };
 
-  nativeCheckInputs = [ pytestCheckHook ];
+  nativeCheckInputs = [ pytest7CheckHook ];
   pytestFlagsArray = [ "razdel" ];
   pythonImportsCheck = [ "razdel" ];
 

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

···
 # tests
 , pip
 , pytest-cov
-, pytestCheckHook
-, pytest_7
+, pytest7CheckHook
 , setuptools
 }:
 
···
     pip
     pytest-cov
     # Failed: DID NOT WARN. No warnings of type (<class 'UserWarning'>,) were emitted.
-    (pytestCheckHook.override { pytest = pytest_7; })
+    pytest7CheckHook
     setuptools
   ]
   ++ passthru.optional-dependencies.networkx

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

···
 , astropy-healpix
 , buildPythonPackage
 , cloudpickle
-, cython_3
+, cython
 , dask
 , fetchPypi
 , fsspec
···
 
   nativeBuildInputs = [
     astropy-extension-helpers
-    cython_3
+    cython
     numpy
     oldest-supported-numpy
     setuptools-scm

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

···
 { lib
 , buildPythonPackage
 , pythonOlder
+, pythonRelaxDepsHook
 , fetchFromGitHub
 , poetry-core
 , packaging
···
 
   nativeBuildInputs = [
     poetry-core
+    pythonRelaxDepsHook
+  ];
+
+  pythonRelaxDeps = [
+    "packaging"
   ];
 
   propagatedBuildInputs = [

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

···
     pytestCheckHook
   ];
 
+  preCheck = ''
+    export PYTHONPATH=$(pwd)/tests:$PYTHONPATH
+  '';
+
   disabledTests = [
     # Disable tests that requires network access
     "test_api"

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

···
 , stdenv
 , buildPythonPackage
 , fetchPypi
-, cython
+, cython_0
 , alsa-lib
 , CoreAudio
 , CoreMIDI
···
     rm rtmidi_python.cpp
   '';
 
-  nativeBuildInputs = [ cython ];
+  nativeBuildInputs = [ cython_0 ];
   buildInputs = lib.optionals stdenv.isLinux [
     alsa-lib
   ] ++ lib.optionals stdenv.isDarwin [

pkgs/development/python-modules/scikit-fuzzy/default.nix

···
 { lib
 , buildPythonPackage
-, pythonOlder
 , fetchFromGitHub
 , fetchpatch
+, pythonAtLeast
+, setuptools
 , matplotlib
 , networkx
 , nose
 , numpy
 , scipy
-, pytestCheckHook
+, pytest7CheckHook
 }:
 
 buildPythonPackage rec {
   pname = "scikit-fuzzy";
   version = "unstable-2022-11-07";
-  format = "setuptools";
+  pyproject = true;
 
-  disabled = pythonOlder "3.6";
+  # code depends on distutils
+  disabled = pythonAtLeast "3.12";
 
   src = fetchFromGitHub {
     owner = pname;
···
     })
   ];
 
-  propagatedBuildInputs = [ networkx numpy scipy ];
-  nativeCheckInputs = [ matplotlib nose pytestCheckHook ];
+  build-system = [
+    setuptools
+  ];
+
+  propagatedBuildInputs = [
+    networkx
+    numpy
+    scipy
+  ];
 
-  pytestFlagsArray = [
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
+  nativeCheckInputs = [
+    matplotlib
+    nose
+    pytest7CheckHook
   ];
 
   pythonImportsCheck = [ "skfuzzy" ];

pkgs/development/python-modules/scikit-learn/default.nix

···
 , fetchPypi
 
 # build-system
-, cython_3
+, cython
 , gfortran
 , numpy
 , scipy
···
   ];
 
   build-system = [
-    cython_3
+    cython
     numpy
     scipy
     setuptools

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

···
 , wheel
 , setuptools
 , hypothesis
-, pytestCheckHook
-, pytest_7
+, pytest7CheckHook
 , pytest-xdist
 , numpy
 , pybind11
···
   nativeCheckInputs = [
     hypothesis
     # Failed: DID NOT WARN. No warnings of type (<class 'DeprecationWarning'>, <class 'PendingDeprecationWarning'>, <class 'FutureWarning'>) were emitted.
-    (pytestCheckHook.override { pytest = pytest_7; })
+    pytest7CheckHook
     pytest-xdist
   ];
 

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

···
 , buildPythonPackage
 
 # build-system
-, cython_3
+, cython
 , git
 , pkgconfig
 , setuptools
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
     git
     pkgconfig
     setuptools

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

···
 
 buildPythonPackage rec {
   pname = "setuptools";
-  version = "69.1.1";
+  version = "69.2.0";
   format = "pyproject";
 
   src = fetchFromGitHub {
     owner = "pypa";
     repo = "setuptools";
     rev = "refs/tags/v${version}";
-    hash = "sha256-TWW8kW7ZjRsl5Y0CEVHqhIVJsiRixSSYe/ctSO1c/78=";
+    hash = "sha256-kll4zYFQn4g/8Fq0Y5vLvDXtotxYMbiNAgGa0sClFQk=";
   };
 
   patches = [

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

···
-{ stdenv
-, lib
+{ lib
 , buildPythonPackage
 , fetchFromGitHub
 , numpy
···
 , matplotlib
 , pyparsing
 , tables
-, cython
+, cython_0
 , python
 , sympy
 , meshio
···
 
   propagatedBuildInputs = [
     numpy
-    cython
+    cython_0
     scipy
     matplotlib
     pyparsing

pkgs/development/python-modules/shapely/1.8.nix

···
 , pythonOlder
 , substituteAll
 
-, cython
+, cython_0
 , geos_3_11
 , numpy
 , oldest-supported-numpy
···
   '';
 
   nativeBuildInputs = [
-    cython
+    cython_0
     geos_3_11 # for geos-config
     oldest-supported-numpy
     setuptools

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

···
 , pytestCheckHook
 , pythonOlder
 
-, cython
+, cython_0
 , geos
 , numpy
 , oldest-supported-numpy
···
   };
 
   nativeBuildInputs = [
-    cython
+    cython_0
     geos # for geos-config
     oldest-supported-numpy
     setuptools

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

···
 { lib
 , buildPythonPackage
 , fetchFromGitHub
+, flit-core
 , pytestCheckHook
 , braceexpand
 , inform
···
 buildPythonPackage rec {
   pname = "shlib";
   version = "1.6";
-  format = "setuptools";
+  pyproject = true;
 
   src = fetchFromGitHub {
     owner = "KenKundert";
···
     hash = "sha256-f2jJgpjybutCpYnIT+RihtoA1YlXdhTs+MvV8bViSMQ=";
   };
 
-  pythonImportsCheck = [ "shlib" ];
   postPatch = ''
     patchShebangs .
   '';
-  nativeCheckInputs = [
-    pytestCheckHook
+
+  build-system = [
+    flit-core
   ];
-  propagatedBuildInputs = [
+
+  dependencies = [
     braceexpand
     inform
   ];
+
+  nativeCheckInputs = [
+    pytestCheckHook
+  ];
+
+  pythonImportsCheck = [ "shlib" ];
 
   meta = with lib; {
     description = "shell library";

pkgs/development/python-modules/smart-open/default.nix

···
 
 buildPythonPackage rec {
   pname = "smart-open";
-  version = "7.0.1";
+  version = "7.0.4";
   pyproject = true;
 
   disabled = pythonOlder "3.7";
···
     owner = "RaRe-Technologies";
     repo = "smart_open";
     rev = "refs/tags/v${version}";
-    hash = "sha256-yGy4xNoHCE+LclBBTMVtTKP6GYZ5w09NJ0OmsUPnir4=";
+    hash = "sha256-4HOTaF6AKXGlVCvSGKnnaH73aa4IO0aRxz03XQ4gSd8=";
   };
 
   build-system = [
···
   ];
 
   meta = with lib; {
+    changelog =  "https://github.com/piskvorky/smart_open/releases/tag/v${version}";
     description = "Library for efficient streaming of very large file";
     homepage = "https://github.com/RaRe-Technologies/smart_open";
     license = licenses.mit;

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

···
 , fetchFromGitHub
 
 # build-system
-, cython_3
+, cython
 , numpy
 , oldest-supported-numpy
 , setuptools
···
   '';
 
   nativeBuildInputs = [
-    cython_3
+    cython
     gnutar
     numpy
     oldest-supported-numpy

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

···
 , fetchPypi
 , numba
 , numpy
-, pytestCheckHook
+, pytest7CheckHook
 , pythonOlder
+, setuptools
+, setuptools-scm
 , scipy
 }:
 
 buildPythonPackage rec {
   pname = "sparse";
   version = "0.15.1";
-  format = "setuptools";
+  pyproject = true;
 
   disabled = pythonOlder "3.6";
 
···
     hash = "sha256-lzrcuIqNuOPYBHlTMx4m0/ZKVlf5tGprhZxHZjw+75k=";
   };
 
-  propagatedBuildInputs = [
+  postPatch = ''
+    sed -i "/addopts =/d" pytest.ini
+  '';
+
+  build-system = [
+    setuptools
+    setuptools-scm
+  ];
+
+  dependencies = [
     numba
     numpy
     scipy
···
 
   nativeCheckInputs = [
     dask
-    pytestCheckHook
+    pytest7CheckHook
   ];
 
   pythonImportsCheck = [

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

···
 , sphinxcontrib-websupport
 
 # check phase
-, cython
 , filelock
 , html5lib
 , pytestCheckHook
···
   __darwinAllowLocalNetworking = true;
 
   nativeCheckInputs = [
-    cython
     filelock
     html5lib
     pytestCheckHook
···
     "test_class_alias_having_doccomment"
     "test_class_alias_for_imported_object_having_doccomment"
     "test_decorators"
+    # requires cython_0, but fails miserably on 3.11
+    "test_cython"
   ] ++ lib.optionals isPyPy [
     # PyPy has not __builtins__ which get asserted
     # https://doc.pypy.org/en/latest/cpython_differences.html#miscellaneous
···
     "test_autodoc_inherited_members_None"
     "test_automethod_for_builtin"
     "test_builtin_function"
-    "test_cython"
     "test_isattributedescriptor"
     "test_methoddescriptor"
     "test_partialfunction"

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

···
 , poetry-core
 , pydantic
 , pytest-asyncio
-, pytestCheckHook
+, pytest7CheckHook
 , pythonOlder
 , sqlalchemy
 }:
···
     dirty-equals
     fastapi
     pytest-asyncio
-    pytestCheckHook
+    pytest7CheckHook
   ];
 
   pythonImportsCheck = [

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

···
 , buildPythonPackage
 , fetchPypi
 , pythonOlder
-, cython
+, cython_0
 , catalogue
 , mock
 , numpy
···
   };
 
   nativeBuildInputs = [
-    cython
+    cython_0
     setuptools
   ];
 

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

···
 { lib
 , buildPythonPackage
 , fetchFromGitHub
-, fetchPypi
 
 # build-system
 , hatchling
···
 , httpx
 
 # tests
-, pytest
 , pytestCheckHook
 , pythonOlder
 , trio
···
 
 buildPythonPackage rec {
   pname = "starlette";
-  version = "0.37.1";
+  version = "0.37.2";
   pyproject = true;
 
   disabled = pythonOlder "3.8";
···
     owner = "encode";
     repo = "starlette";
     rev = "refs/tags/${version}";
-    hash = "sha256-SJdBss1WKC30oulVTYUwUAJ8WM0KF5xbn/gvV97WM2g=";
+    hash = "sha256-GiCN1sfhLu9i19d2OcLZrlY8E64DFrFh+ITRSvLaxdE=";
   };
 
   nativeBuildInputs = [
···
   ];
 
   nativeCheckInputs = [
-    (pytestCheckHook.override {
-      # pytest 8 changes warning message
-      # see https://github.com/encode/starlette/commit/8da52c2243b8855426c40c16ae24b27734824078
-      pytest = pytest.overridePythonAttrs (old: rec {
-        version = "8.1.0";
-        src = fetchPypi {
-          pname = "pytest";
-          inherit version;
-          hash = "sha256-+PoEq4+Y0YUROuYOptecIvgUOxS8HK7O1EoKuESSgyM=";
-        };
-      });
-    })
+    pytestCheckHook
     trio
     typing-extensions
   ] ++ lib.flatten (lib.attrValues passthru.optional-dependencies);

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

···
 , pympler
 , python-dateutil
 , pythonOlder
+, pythonRelaxDepsHook
 , setuptools
 , requests
 , rich
···
 
   nativeBuildInputs = [
     setuptools
+    pythonRelaxDepsHook
+  ];
+
+  pythonRelaxDeps = [
+    "packaging"
   ];
 
   propagatedBuildInputs = [

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

···
 { lib
 , buildPythonPackage
 , fetchPypi
-, nose
-, tox
-, six
-, python-dateutil
+
+# build-system
+, setuptools
+
+# native dependencies
+, pkgs
+
+# dependencies
 , kitchen
-, pytestCheckHook
+, python-dateutil
 , pytz
-, pkgs
+
+# tests
+, pytest7CheckHook
 }:
 
 buildPythonPackage rec {
   pname = "taskw";
   version = "2.0.0";
-  format = "setuptools";
+  pyproject = true;
 
   src = fetchPypi {
     inherit pname version;
···
     substituteInPlace taskw/warrior.py \
       --replace '@@taskwarrior@@' '${pkgs.taskwarrior}'
   '';
+
+  build-system = [
+    setuptools
+  ];
 
   buildInputs = [ pkgs.taskwarrior ];
 
-  propagatedBuildInputs = [ six python-dateutil kitchen pytz ];
+  dependencies = [
+    kitchen
+    python-dateutil
+    pytz
+  ];
 
-  nativeCheckInputs = [ pytestCheckHook ];
+  nativeCheckInputs = [ pytest7CheckHook ];
 
   meta = with lib; {
     homepage =  "https://github.com/ralphbean/taskw";

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

···
 { lib
 , buildPythonPackage
 , cairocffi
-, cython_3
+, cython
 , fetchPypi
 , igraph
 , leidenalg
···
 
   nativeBuildInputs = [
     pythonRelaxDepsHook
-    cython_3
+    cython
     poetry-core
     setuptools
   ];

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

···
 , CoreGraphics
 , CoreVideo
 , cymem
-, cython
+, cython_0
 , fetchPypi
 , hypothesis
 , mock
···
   ];
 
   buildInputs = [
-    cython
+    cython_0
   ] ++ lib.optionals stdenv.isDarwin [
     Accelerate
     CoreFoundation

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

···
 , trampoline
 
 # tests
-, pytestCheckHook
+, pytest7CheckHook
 }:
 
 buildPythonPackage rec {
···
   pythonImportsCheck = [ "torchsde" ];
 
   nativeCheckInputs = [
-    pytestCheckHook
-  ];
-
-  pytestFlagsArray = [
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
+    pytest7CheckHook
   ];
 
   disabledTests = [

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

···
 , buildPythonPackage
 , fetchFromGitHub
 , fetchpatch
-, cython
+, cython_0
 , certifi
 , CFNetwork
 , cmake
···
 
   nativeBuildInputs = [
     cmake
-    cython
+    cython_0
   ];
 
   buildInputs = [

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

···
 , buildPythonPackage
 , fetchFromGitHub
 , fetchpatch
+, setuptools
 , matchpy
 , numpy
 , astunparse
 , typing-extensions
-, pytestCheckHook
+, pytest7CheckHook
 , pytest-cov
 }:
 
 buildPythonPackage rec {
   pname = "uarray";
   version = "0.8.2";
-  format = "setuptools";
+  pyproject = true;
 
   src = fetchFromGitHub {
     owner = "Quansight-Labs";
···
     }
   )];
 
-  nativeCheckInputs = [ pytestCheckHook pytest-cov ];
-  propagatedBuildInputs = [ matchpy numpy astunparse typing-extensions ];
+  build-system = [
+    setuptools
+  ];
+
+  dependencies = [
+    astunparse
+    matchpy
+    numpy
+    typing-extensions
+  ];
+
+  nativeCheckInputs = [
+    pytest7CheckHook
+    pytest-cov
+  ];
 
   # Tests must be run from outside the source directory
   preCheck = ''
     cd $TMP
   '';
-  pytestFlagsArray = ["--pyargs" "uarray" "-W" "ignore::pytest.PytestRemovedIn8Warning" ];
+
+  pytestFlagsArray = [
+    "--pyargs"
+    "uarray"
+  ];
+
   pythonImportsCheck = [ "uarray" ];
 
   meta = with lib; {

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

···
 , buildPythonPackage
 , fetchFromGitHub
 , pythonOlder
-, cython_3
+, cython
 , setuptools
 , setuptools-scm
 , pytestCheckHook
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
     setuptools
     setuptools-scm
   ];

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

···
 , fetchPypi
 
 # build-system
-, cython
+, cython_0
 , setuptools
 
 # native dependencies
···
   };
 
   nativeBuildInputs = [
-    cython
+    cython_0
     setuptools
   ];
 

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

···
     pytestCheckHook
   ];
 
-  pytestFlagsArray = [
-    # pytest.PytestRemovedIn8Warning: Support for nose tests is deprecated and will be removed in a future release.
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
+  disabledTestPaths = [
+    # https://github.com/celery/vine/issues/106
+    "t/unit/test_synchronization.py"
   ];
 
   pythonImportsCheck = [

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

···
 , buildPythonPackage
 , substituteAll
 , fetchPypi
-, cython_3
+, cython
 , fontconfig
 , freetype-py
 , hsluv
···
   ];
 
   nativeBuildInputs = [
-    cython_3
+    cython
     oldest-supported-numpy
     setuptools
     setuptools-scm

pkgs/development/python-modules/wikipedia2vec/default.nix

···
 { lib
 , buildPythonPackage
 , click
-, cython_3
+, cython
 , fetchFromGitHub
 , jieba
 , joblib
···
   };
 
   nativeBuildInputs = [
-    cython_3
+    cython
     setuptools
   ];
 
   propagatedBuildInputs = [
     click
-    cython_3
+    cython
     jieba
     joblib
     lmdb

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

···
 , babel
 , buildPythonPackage
 , fetchFromGitLab
-, fetchpatch
+, pythonRelaxDepsHook
 , html2text
 , lxml
 , packaging
···
 
   nativeBuildInputs = [
     setuptools
+    pythonRelaxDepsHook
+  ];
+
+  pythonRelaxDeps = [
+    "packaging"
   ];
 
   propagatedBuildInputs = [

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

···
 , buildPythonPackage
 , fetchPypi
 , pythonOlder
-, cython_3
+, cython
 , expandvars
 , setuptools
 , idna
···
   '';
 
   nativeBuildInputs = [
-    cython_3
+    cython
     expandvars
     setuptools
   ];

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

···
 { lib
-, cython_3
+, cython
 , async-timeout
 , buildPythonPackage
 , fetchFromGitHub
···
   '';
 
   nativeBuildInputs = [
-    cython_3
+    cython
     poetry-core
     setuptools
   ];

pkgs/development/tools/analysis/checkov/default.nix

···
     "networkx"
     "openai"
     "packageurl-python"
+    "packaging"
     "pycep-parser"
     "termcolor"
   ];

pkgs/development/tools/steamos-devkit/default.nix

···
     };
 
     nativeBuildInputs = with python3.pkgs; [
-      cython
+      cython_0
       pkg-config
       SDL2
     ];

pkgs/servers/home-assistant/default.nix

···
         };
 
         nativeBuildInputs = with self; [
-          cython_3
+          cython
           setuptools
           libxml2.dev
           libxslt.dev

pkgs/servers/radicale/3.x.nix

···
   __darwinAllowLocalNetworking = true;
 
   nativeCheckInputs = with python3.pkgs; [
-    pytestCheckHook
+    pytest7CheckHook
     waitress
-  ];
-
-  pytestFlagsArray = [
-    # pytest.PytestRemovedIn8Warning: Support for nose tests is deprecated and will be removed in a future release.
-    "-W" "ignore::pytest.PytestRemovedIn8Warning"
   ];
 
   passthru.tests = {

pkgs/tools/filesystems/ceph/default.nix

···
           inherit version;
           hash = "sha256-hBSYub7GFiOxtsR+u8AjZ8B9YODhlfGXkIF/EMyNsLc=";
         };
-        pytestFlagsArray = [
-          "-W" "ignore::pytest.PytestRemovedIn8Warning"
+        disabledTests = old.disabledTests or [ ] ++ [
+          "test_export_md5_digest"
         ];
       });
 

pkgs/tools/misc/thefuck/default.nix

···
 { lib, stdenv, fetchFromGitHub, buildPythonApplication
 , colorama, decorator, psutil, pyte, six
-, go, mock, pytestCheckHook, pytest-mock, pytest_7
+, go, mock, pytest7CheckHook, pytest-mock
 }:
 
 buildPythonApplication rec {
···
 
   propagatedBuildInputs = [ colorama decorator psutil pyte six ];
 
-  nativeCheckInputs = [ go mock (pytestCheckHook.override { pytest = pytest_7; }) pytest-mock ];
+  nativeCheckInputs = [ go mock pytest7CheckHook pytest-mock ];
 
   disabledTests = lib.optionals stdenv.isDarwin [
     "test_settings_defaults"

pkgs/tools/security/onlykey-cli/default.nix

···
     sha256 = "sha256-ZmQnyZx9YlIIxMMdZ0U2zb+QANfcwrtG7iR1LpgzmBQ=";
   };
 
+  build-system = with python3Packages; [
+    cython
+  ];
+
   propagatedBuildInputs = with python3Packages; [
     aenum
-    cython
     ecdsa
     hidapi
     onlykey-solo-python

pkgs/tools/virtualization/cloud-init/default.nix

···
   ];
 
   nativeCheckInputs = with python3.pkgs; [
-    (pytestCheckHook.override { pytest = pytest_7; })
+    pytest7CheckHook
     httpretty
     dmidecode
     # needed for tests; at runtime we rather want the setuid wrapper

pkgs/top-level/python-packages.nix

···
 
   cython = callPackage ../development/python-modules/cython { };
 
-  cython_3 = self.cython.overridePythonAttrs (old: rec {
-    version = "3.0.9";
-    src = old.src.override {
-      inherit version;
-      hash = "sha256-otNU8FnR8FXTTPqmLFtovHisLOq2QHFI1H+1CM87pPM=";
-    };
-    patches = [ ];
-  });
+  cython_0 = callPackage ../development/python-modules/cython/0.nix { };
 
   cython-test-exception-raiser = callPackage ../development/python-modules/cython-test-exception-raiser { };
 
···
   pytest = callPackage ../development/python-modules/pytest { };
 
   pytest_7 = callPackage ../development/python-modules/pytest/7.nix { };
+
+  pytest7CheckHook = pytestCheckHook.override { pytest = pytest_7; };
 
   pytest-aio = callPackage ../development/python-modules/pytest-aio { };