Merge staging-next into staging

maintainers/maintainer-list.nix

@@ -10752,7 +10752,7 @@
     name = "Jeffrey David Johnson";
   };
   jefflabonte = {
-    email = "grimsleepless@protonmail.com";
+    email = "jean-francois.labonte@brightonlabs.ai";
     github = "JeffLabonte";
     githubId = 9425955;
     name = "Jean-François Labonté";

pkgs/applications/editors/vscode/vscode.nix

@@ -36,22 +36,22 @@ let
 
   sha256 =
     {
-      x86_64-linux = "0a4siy3is9bzbzmhhaf4l2djabv1yxjb20yp48i094wk0lpwbgcm";
-      x86_64-darwin = "1pdx07ibylfk8zx71cjfjmsd8650kpd8rvkknixg1nm1jar9zsb3";
-      aarch64-linux = "0x2qg7ixgkq637qvd218zk8ykfq97l55az17fqgp9dm9g73xn85f";
-      aarch64-darwin = "0jlfkkc99wv875n2h5v3lnyhjhh74w53yd07jp02fbg4hs8sds92";
-      armv7l-linux = "13a7s1il860g7v41wwdac3zdawc9w0bkrg9yif99s5ll0nakfs88";
+      x86_64-linux = "0gr2z4vzms6fv4kcc8dzc7l3inpb5hasnzdfr1zc2n4i3nl8z8vw";
+      x86_64-darwin = "1qplpjazjds5kns0kmp5qa6zfix30cqa93bl4bcpvblb2x9fh1v8";
+      aarch64-linux = "1jhrmwrnxzwvhqgfrs35kyd5hhg2b7dyq3p5k88jhm8607nkds79";
+      aarch64-darwin = "072lg4nvq3cdjzrwngaxnz9p952zkxsknsb39zjh55vzrij55g9x";
+      armv7l-linux = "06bvh72bq4ippr2k8ifcfqhkhhh6na4vxsz1k50swr1k2kzwwr5d";
     }
     .${system} or throwSystem;
 in
 callPackage ./generic.nix rec {
   # Please backport all compatible updates to the stable release.
   # This is important for the extension ecosystem.
-  version = "1.97.0";
+  version = "1.97.1";
   pname = "vscode" + lib.optionalString isInsiders "-insiders";
 
   # This is used for VS Code - Remote SSH test
-  rev = "33fc5a94a3f99ebe7087e8fe79fbe1d37a251016";
+  rev = "e249dada235c2083c83813bd65b7f4707fb97b76";
 
   executableName = "code" + lib.optionalString isInsiders "-insiders";
   longName = "Visual Studio Code" + lib.optionalString isInsiders " - Insiders";
@@ -75,7 +75,7 @@ callPackage ./generic.nix rec {
     src = fetchurl {
       name = "vscode-server-${rev}.tar.gz";
       url = "https://update.code.visualstudio.com/commit:${rev}/server-linux-x64/stable";
-      sha256 = "1vqqrcyrb8kigdwap5rkpil8lrahngix16hyqpvsmf0gsyjh46h0";
+      sha256 = "01snzahh794ygpgwh4r57c8mnisp6a4fc3v5x76cdhxw2hd9s26n";
     };
     stdenv = stdenvNoCC;
   };
@@ -110,6 +110,7 @@ callPackage ./generic.nix rec {
       synthetica
       bobby285271
       johnrtitor
+      jefflabonte
     ];
     platforms = [
       "x86_64-linux"

pkgs/by-name/co/containerlab/package.nix

@@ -7,16 +7,16 @@
 
 buildGoModule rec {
   pname = "containerlab";
-  version = "0.62.2";
+  version = "0.64.0";
 
   src = fetchFromGitHub {
     owner = "srl-labs";
     repo = "containerlab";
     rev = "v${version}";
-    hash = "sha256-RUe/IHHhZKbxtNVxiS29/OPvpCCOzaz2d5Qh3vVll3U=";
+    hash = "sha256-ijqylVQKt7N3rc+HVc34XfU3LMXAtn+mhVWIzZZIikw=";
   };
 
-  vendorHash = "sha256-G9W4iC04R5Rvl3hAJtMlUKJKo7AAIE33Y2c+0HedXU8=";
+  vendorHash = "sha256-9p4J9qkIQCubn3W4b3qNHfq1M2kMiqG0eGFaBxGdrAk=";
 
   nativeBuildInputs = [ installShellFiles ];
 

pkgs/by-name/de/deeptools/package.nix

@@ -1,46 +1,43 @@
 {
   lib,
-  python3,
+  python3Packages,
   fetchFromGitHub,
+  addBinToPathHook,
 }:
 
-python3.pkgs.buildPythonApplication rec {
+python3Packages.buildPythonApplication rec {
   pname = "deeptools";
-  version = "3.5.5";
+  version = "3.5.6";
   pyproject = true;
 
   src = fetchFromGitHub {
     owner = "deeptools";
     repo = "deepTools";
     tag = version;
-    hash = "sha256-2kSlL7Y5f/FjVtStnmz+GlTw2oymrtxOCaXlqgbQ7FU=";
+    hash = "sha256-dxXlOvOjF4KSc5YO+1A5hlp95sfeyPSbmp93tihm7Vo=";
   };
 
-  nativeBuildInputs = with python3.pkgs; [
+  build-system = with python3Packages; [
     setuptools
   ];
 
-  propagatedBuildInputs = with python3.pkgs; [
+  dependencies = with python3Packages; [
     numpy
-    numpydoc
     scipy
-    py2bit
-    pybigwig
-    pysam
     matplotlib
+    pysam
+    numpydoc
+    pybigwig
+    py2bit
     plotly
     deeptoolsintervals
-    importlib-metadata
   ];
 
-  nativeCheckInputs = with python3.pkgs; [
+  nativeCheckInputs = with python3Packages; [
     pytestCheckHook
+    addBinToPathHook
   ];
 
-  preCheck = ''
-    export PATH="$out/bin:$PATH"
-  '';
-
   disabledTestPaths = [
     # tests trip on `len(sys.argv) == 1`
     "deeptools/test/test_bigwigAverage.py"
@@ -49,7 +46,7 @@ python3.pkgs.buildPythonApplication rec {
     "deeptools/test/test_multiBamSummary.py"
   ];
 
-  meta = with lib; {
+  meta = {
     homepage = "https://deeptools.readthedocs.io/en/develop";
     description = "Tools for exploring deep DNA sequencing data";
     longDescription = ''
@@ -60,10 +57,10 @@ python3.pkgs.buildPythonApplication rec {
       publication-ready visualizations to identify enrichments and for functional
       annotations of the genome.
     '';
-    license = with licenses; [
+    license = with lib.licenses; [
       mit
       bsd3
     ];
-    maintainers = with maintainers; [ scalavision ];
+    maintainers = with lib.maintainers; [ scalavision ];
   };
 }

pkgs/by-name/de/desktop-file-utils/package.nix

@@ -38,7 +38,7 @@ stdenv.mkDerivation rec {
   meta = with lib; {
     homepage = "https://www.freedesktop.org/wiki/Software/desktop-file-utils";
     description = "Command line utilities for working with .desktop files";
-    platforms = platforms.linux ++ platforms.darwin;
+    platforms = platforms.linux ++ platforms.darwin ++ platforms.freebsd;
     license = licenses.gpl2Plus;
   };
 }

pkgs/by-name/go/google-amber/package.nix

@@ -18,8 +18,8 @@ let
   glslang = fetchFromGitHub {
     owner = "KhronosGroup";
     repo = "glslang";
-    rev = "e8dd0b6903b34f1879520b444634c75ea2deedf5";
-    hash = "sha256-B6jVCeoFjd2H6+7tIses+Kj8DgHS6E2dkVzQAIzDHEc=";
+    rev = "340bf88f3fdb4f4a25b7071cd2c1205035fc6eaa";
+    hash = "sha256-3h27yE6k4BgUAugQCkpUYO5aIHpK6Anyh90y3q+aYpM=";
   };
 
   lodepng = fetchFromGitHub {
@@ -32,34 +32,34 @@ let
   shaderc = fetchFromGitHub {
     owner = "google";
     repo = "shaderc";
-    rev = "f59f0d11b80fd622383199c867137ededf89d43b";
-    hash = "sha256-kHz8Io5GZDWv1FjPyBWRpnKhGygKhSU4L9zl/AKXZlU=";
+    rev = "690d259384193c90c01b52288e280b05a8481121";
+    hash = "sha256-p4tP/8lRy0tpdDHIuh2/tWPIBBr2ludFRSr+Q2TbUic=";
   };
 
   spirv-headers = fetchFromGitHub {
     owner = "KhronosGroup";
     repo = "SPIRV-Headers";
-    rev = "5e3ad389ee56fca27c9705d093ae5387ce404df4";
-    hash = "sha256-gjF5mVTXqU/GZzr2S6oKGChgvqqHcQSrEq/ePP2yJys=";
+    rev = "3f17b2af6784bfa2c5aa5dbb8e0e74a607dd8b3b";
+    hash = "sha256-MCQ+i9ymjnxRZP/Agk7rOGdHcB4p67jT4J4athWUlcI=";
   };
 
   spirv-tools = fetchFromGitHub {
     owner = "KhronosGroup";
     repo = "SPIRV-Tools";
-    rev = "9241a58a8028c49510bc174b6c970e3c2b4b8e51";
-    hash = "sha256-0qHUpwNDJI2jV4h68QaTNPIwTPxwTt0iAUnMXqFCiJE=";
+    rev = "13b59bf1d84054b8ccd29cdc6b1303f69e8f9e77";
+    hash = "sha256-k/mTHiLbZdnslC24fjcrzqsZYMyVaAADGEqngqJcC2c=";
   };
 
 in
 stdenv.mkDerivation (finalAttrs: {
   pname = "amber";
-  version = "unstable-2024-08-21";
+  version = "unstable-2025-02-03";
 
   src = fetchFromGitHub {
     owner = "google";
     repo = "amber";
-    rev = "66399a35927606a435bf7a59756e87e6cb5a0013";
-    hash = "sha256-PCO64zI/vzp4HyGz5WpeYpCBeaWjTvz1punWsTz1yiM=";
+    rev = "3f078e41d86ca1a5881560f00e26198f59bb8ac0";
+    hash = "sha256-pAotVFmtEGp9GKmDD0vrbfbO+Xt2URmM8gYCjl0LEnk=";
   };
 
   buildInputs = [

pkgs/by-name/pu/pulldown-cmark/package.nix

@@ -6,15 +6,15 @@
 
 rustPlatform.buildRustPackage rec {
   pname = "pulldown-cmark";
-  version = "0.12.2";
+  version = "0.13.0";
 
   src = fetchCrate {
     inherit pname version;
-    hash = "sha256-dsSt0JC3e1IItyY16tosxD83XUdttHVIT40QsW9iUFU=";
+    hash = "sha256-lp0ywX/3phfC30QvYkO2wFZNSinP4cdm4HY744EZ02o=";
   };
 
   useFetchCargoVendor = true;
-  cargoHash = "sha256-5AXEXuw3aKT8ghzEclwZYSOQvKcy90OvZbAVVkNJq1U=";
+  cargoHash = "sha256-ek6Eczqb/kxxoZFakGcwrgqXAtNCtQxDX2PHdOcIUjU=";
 
   meta = {
     description = "Pull parser for CommonMark written in Rust";

pkgs/by-name/wy/wyoming-satellite/package.nix

@@ -2,6 +2,7 @@
   lib,
   python3Packages,
   fetchFromGitHub,
+  fetchpatch2,
 }:
 
 let
@@ -21,16 +22,24 @@ let
 in
 python.pkgs.buildPythonApplication rec {
   pname = "wyoming-satellite";
-  version = "1.3.0";
+  version = "1.4.1";
   pyproject = true;
 
   src = fetchFromGitHub {
     owner = "rhasspy";
     repo = "wyoming-satellite";
     tag = "v${version}";
-    hash = "sha256-9UgfD0Hs/IgOszd/QBbe6DYY6kBWh7q/e57gghQ1/Bk=";
+    hash = "sha256-sAtyyS60Fr6iFE3tTxEgAjhmX6O5WjWwb9rk+phzrtM=";
   };
 
+  patches = [
+    (fetchpatch2 {
+      # https://github.com/rhasspy/wyoming-satellite/pull/285
+      url = "https://github.com/rhasspy/wyoming-satellite/commit/69465fd56011179cb92e7ce95da2e79fb06a83fb.patch";
+      hash = "sha256-njJ8kIVGOpYK6bDeGow3OSNHxKQ9NsUKAR3+lEUH3GE=";
+    })
+  ];
+
   build-system = with python.pkgs; [
     setuptools
   ];
@@ -46,14 +55,19 @@ python.pkgs.buildPythonApplication rec {
     zeroconf
   ];
 
-  optional-dependencies = {
+  optional-dependencies = lib.fix (self: {
+    all = self.silerovad ++ self.webrtc;
+    respeaker = with python3Packages; [
+      gpiozero
+      spidev
+    ];
     silerovad = with python3Packages; [
       pysilero-vad
     ];
     webrtc = with python3Packages; [
       webrtc-noise-gain
     ];
-  };
+  });
 
   pythonImportsCheck = [
     "wyoming_satellite"

pkgs/development/interpreters/python/cpython/3.12/CVE-2024-12254.patch

@@ -1,45 +0,0 @@
-From e991ac8f2037d78140e417cc9a9486223eb3e786 Mon Sep 17 00:00:00 2001
-From: "J. Nick Koston" <nick@koston.org>
-Date: Thu, 5 Dec 2024 22:33:03 -0600
-Subject: [PATCH] gh-127655: Ensure `_SelectorSocketTransport.writelines`
- pauses the protocol if needed (#127656)
-
-Ensure `_SelectorSocketTransport.writelines` pauses the protocol if it reaches the high water mark as needed.
-
-Co-authored-by: Kumar Aditya <kumaraditya@python.org>
-
-diff --git a/Lib/asyncio/selector_events.py b/Lib/asyncio/selector_events.py
-index f94bf10b4225e7..f1ab9b12d69a5d 100644
---- a/Lib/asyncio/selector_events.py
-+++ b/Lib/asyncio/selector_events.py
-@@ -1175,6 +1175,7 @@ def writelines(self, list_of_data):
-         # If the entire buffer couldn't be written, register a write handler
-         if self._buffer:
-             self._loop._add_writer(self._sock_fd, self._write_ready)
-+            self._maybe_pause_protocol()
- 
-     def can_write_eof(self):
-         return True
-diff --git a/Lib/test/test_asyncio/test_selector_events.py b/Lib/test/test_asyncio/test_selector_events.py
-index aaeda33dd0c677..efca30f37414f9 100644
---- a/Lib/test/test_asyncio/test_selector_events.py
-+++ b/Lib/test/test_asyncio/test_selector_events.py
-@@ -805,6 +805,18 @@ def test_writelines_send_partial(self):
-         self.assertTrue(self.sock.send.called)
-         self.assertTrue(self.loop.writers)
- 
-+    def test_writelines_pauses_protocol(self):
-+        data = memoryview(b'data')
-+        self.sock.send.return_value = 2
-+        self.sock.send.fileno.return_value = 7
-+
-+        transport = self.socket_transport()
-+        transport._high_water = 1
-+        transport.writelines([data])
-+        self.assertTrue(self.protocol.pause_writing.called)
-+        self.assertTrue(self.sock.send.called)
-+        self.assertTrue(self.loop.writers)
-+
-     @unittest.skipUnless(selector_events._HAS_SENDMSG, 'no sendmsg')
-     def test_write_sendmsg_full(self):
-         data = memoryview(b'data')

pkgs/development/interpreters/python/cpython/default.nix

@@ -254,7 +254,7 @@ in with passthru; stdenv.mkDerivation (finalAttrs: {
     # (since it will do a futile invocation of gcc (!) to find
     # libuuid, slowing down program startup a lot).
     noldconfigPatch
-  ] ++ optionals (!isPy312 && !isPy313) [
+  ] ++ optionals (pythonOlder "3.12") [
     # https://www.cve.org/CVERecord?id=CVE-2025-0938
     ./CVE-2025-0938.patch
   ] ++ optionals (stdenv.hostPlatform != stdenv.buildPlatform && stdenv.hostPlatform.isFreeBSD) [
@@ -299,8 +299,6 @@ in with passthru; stdenv.mkDerivation (finalAttrs: {
   ] ++ optionals (pythonOlder "3.12") [
     # https://github.com/python/cpython/issues/90656
     ./loongarch-support.patch
-  ] ++ optionals isPy314 [
-    ./3.12/CVE-2024-12254.patch
   ] ++ optionals (pythonAtLeast "3.11" && pythonOlder "3.13") [
     # backport fix for https://github.com/python/cpython/issues/95855
     ./platform-triplet-detection.patch

pkgs/development/interpreters/python/default.nix

@@ -100,9 +100,9 @@ in {
       major = "3";
       minor = "14";
       patch = "0";
-      suffix = "a4";
+      suffix = "a5";
     };
-    hash = "sha256-wk8HiBhzwdRgIoeVymyoyZEw4wx3PJFGPTDX6o/w5ws=";
+    hash = "sha256-dOg/Jt4eT7nu8bVkks/5JQiDS7cawT9cWAQ4zp8JNoI=";
     inherit passthruFun;
   };
   # Minimal versions of Python (built without optional dependencies)

pkgs/development/python-modules/awkward-cpp/default.nix

@@ -11,13 +11,13 @@
 
 buildPythonPackage rec {
   pname = "awkward-cpp";
-  version = "43";
+  version = "44";
   pyproject = true;
 
   src = fetchPypi {
     pname = "awkward_cpp";
     inherit version;
-    hash = "sha256-we11WW7IKvZm2ghLW/gF2bcsg1MtA10rZeB5WQXSXq0=";
+    hash = "sha256-jcSZKI1tFrLqILUaJ9UEflGiR7aqz8vLOzAsrW08h9g=";
   };
 
   build-system = [

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

@@ -1,7 +1,7 @@
 {
   lib,
+  stdenv,
   buildPythonPackage,
-  pythonOlder,
   fetchFromGitHub,
 
   # build-system
@@ -13,12 +13,9 @@
   fsspec,
   numpy,
   packaging,
-  typing-extensions,
-  importlib-metadata,
 
-  # checks
+  # tests
   numba,
-  setuptools,
   numexpr,
   pandas,
   pyarrow,
@@ -28,14 +25,14 @@
 
 buildPythonPackage rec {
   pname = "awkward";
-  version = "2.7.2";
+  version = "2.7.4";
   pyproject = true;
 
   src = fetchFromGitHub {
     owner = "scikit-hep";
     repo = "awkward";
     tag = "v${version}";
-    hash = "sha256-nOKMwAQ5t8tc64bEKz0j8JxxoVQQu39Iu8Zr9cqSx7A=";
+    hash = "sha256-OXSl+8sfrx+JlLu40wHf+98WVNNwm9uxvsnGXRDztDg=";
   };
 
   build-system = [
@@ -43,15 +40,12 @@ buildPythonPackage rec {
     hatchling
   ];
 
-  dependencies =
-    [
-      awkward-cpp
-      fsspec
-      numpy
-      packaging
-    ]
-    ++ lib.optionals (pythonOlder "3.11") [ typing-extensions ]
-    ++ lib.optionals (pythonOlder "3.12") [ importlib-metadata ];
+  dependencies = [
+    awkward-cpp
+    fsspec
+    numpy
+    packaging
+  ];
 
   dontUseCmakeConfigure = true;
 
@@ -60,7 +54,6 @@ buildPythonPackage rec {
   nativeCheckInputs = [
     fsspec
     numba
-    setuptools
     numexpr
     pandas
     pyarrow
@@ -68,11 +61,27 @@ buildPythonPackage rec {
     pytestCheckHook
   ];
 
-  disabledTestPaths = [
-    # Need to be run on a GPU platform.
-    "tests-cuda"
+  disabledTests = [
+    # pyarrow.lib.ArrowInvalid
+    "test_recordarray"
   ];
 
+  disabledTestPaths =
+    [
+      # Need to be run on a GPU platform.
+      "tests-cuda"
+    ]
+    ++ lib.optionals (stdenv.hostPlatform.isLinux && stdenv.hostPlatform.isAarch64) [
+      # Fatal Python error: Segmentation fault at:
+      # numba/typed/typedlist.py", line 344 in append
+      "tests/test_0118_numba_cpointers.py"
+      "tests/test_0397_arrays_as_constants_in_numba.py"
+      "tests/test_1677_array_builder_in_numba.py"
+      "tests/test_2055_array_builder_check.py"
+      "tests/test_2349_growablebuffer_in_numba.py"
+      "tests/test_2408_layoutbuilder_in_numba.py"
+    ];
+
   meta = {
     description = "Manipulate JSON-like data with NumPy-like idioms";
     homepage = "https://github.com/scikit-hep/awkward";

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

@@ -57,6 +57,10 @@ buildPythonPackage rec {
     hatch-vcs
   ];
 
+  pythonRelaxDeps = [
+    "dask"
+  ];
+
   dependencies = [
     aiohttp
     awkward
@@ -106,6 +110,10 @@ buildPythonPackage rec {
     # AssertionError: bug in Awkward Array: attempt to convert TypeTracerArray into a concrete array
     "test_apply_to_fileset"
     "test_lorentz_behavior"
+
+    # ValueError: The array to mask was deleted before it could be masked.
+    # If you want to construct this mask, you must either keep the array alive or use 'ak.mask' explicitly.
+    "test_read_nanomc"
   ];
 
   __darwinAllowLocalNetworking = true;

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

@@ -16,7 +16,7 @@
   # optional-dependencies
   pyarrow,
 
-  # checks
+  # tests
   dask-histogram,
   distributed,
   hist,
@@ -27,14 +27,14 @@
 
 buildPythonPackage rec {
   pname = "dask-awkward";
-  version = "2024.12.2";
+  version = "2025.2.0";
   pyproject = true;
 
   src = fetchFromGitHub {
     owner = "dask-contrib";
     repo = "dask-awkward";
     tag = version;
-    hash = "sha256-pL1LDW/q78V/c3Bha38k40018MFO+i8X6htYNdcsy7s=";
+    hash = "sha256-hhAY2cPUOYnP86FGsLvxlMeoEwY+sTrjPMKyuZrO0/M=";
   };
 
   build-system = [
@@ -53,8 +53,8 @@ buildPythonPackage rec {
     io = [ pyarrow ];
   };
 
-  checkInputs = [
-    dask-histogram
+  nativeCheckInputs = [
+    # dask-histogram (circular dependency)
     distributed
     hist
     pandas
@@ -86,7 +86,7 @@ buildPythonPackage rec {
   meta = {
     description = "Native Dask collection for awkward arrays, and the library to use it";
     homepage = "https://github.com/dask-contrib/dask-awkward";
-    changelog = "https://github.com/dask-contrib/dask-awkward/releases/tag/${src.tag}";
+    changelog = "https://github.com/dask-contrib/dask-awkward/releases/tag/${version}";
     license = lib.licenses.bsd3;
     maintainers = with lib.maintainers; [ veprbl ];
   };

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

@@ -1,65 +0,0 @@
-{
-  lib,
-  buildPythonPackage,
-  fetchFromGitHub,
-
-  # build-system
-  setuptools,
-  versioneer,
-
-  # dependencies
-  dask,
-  pandas,
-  pyarrow,
-
-  # checks
-  jinja2,
-  pytestCheckHook,
-  xarray,
-}:
-
-buildPythonPackage rec {
-  pname = "dask-expr";
-  version = "1.1.21";
-  pyproject = true;
-
-  src = fetchFromGitHub {
-    owner = "dask";
-    repo = "dask-expr";
-    tag = "v${version}";
-    hash = "sha256-t1vPlTxV5JYArg/a7CzPP13NHbstEoCgHRmd8Y9mDfA=";
-  };
-
-  postPatch = ''
-    substituteInPlace pyproject.toml \
-      --replace-fail "versioneer[toml]==0.28" "versioneer[toml]"
-  '';
-
-  build-system = [
-    setuptools
-    versioneer
-  ];
-
-  dependencies = [
-    dask
-    pandas
-    pyarrow
-  ];
-
-  pythonImportsCheck = [ "dask_expr" ];
-
-  nativeCheckInputs = [
-    jinja2
-    pytestCheckHook
-    xarray
-  ];
-
-  __darwinAllowLocalNetworking = true;
-
-  meta = {
-    description = "Rewrite of Dask DataFrame that includes query optimization and generally improved organization";
-    homepage = "https://github.com/dask/dask-expr";
-    license = lib.licenses.bsd3;
-    maintainers = with lib.maintainers; [ GaetanLepage ];
-  };
-}

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

@@ -1,34 +1,46 @@
 {
   lib,
   buildPythonPackage,
+  fetchFromGitHub,
+
+  # build-system
+  setuptools-scm,
+
+  # dependencies
   cloudpickle,
-  dask,
   distributed,
-  fetchPypi,
   multipledispatch,
-  pytestCheckHook,
-  pythonOlder,
   scikit-learn,
   scipy,
-  setuptools-scm,
   sparse,
+  dask,
+
+  # tests
+  pytest-xdist,
+  pytestCheckHook,
 }:
 
 buildPythonPackage rec {
   pname = "dask-glm";
   version = "0.3.2";
-  format = "setuptools";
+  pyproject = true;
 
-  disabled = pythonOlder "3.7";
-
-  src = fetchPypi {
-    inherit pname version;
-    hash = "sha256-yUelZoZmmKAdeZeK5zIzy16DitXq1ghRQ1gsXpMLmko=";
+  src = fetchFromGitHub {
+    owner = "dask";
+    repo = "dask-glm";
+    tag = version;
+    hash = "sha256-q98QMmw1toashimS16of54cgZgIPqkua3xGD1FZ1nTc=";
   };
 
-  nativeBuildInputs = [ setuptools-scm ];
+  # ValueError: The truth value of an empty array is ambiguous. Use `array.size > 0` to check that an array is not empty.
+  postPatch = ''
+    substituteInPlace dask_glm/utils.py \
+      --replace-fail "if arr:" "if (arr is not None) and (arr.size > 0):"
+  '';
 
-  propagatedBuildInputs = [
+  build-system = [ setuptools-scm ];
+
+  dependencies = [
     cloudpickle
     distributed
     multipledispatch
@@ -38,30 +50,24 @@ buildPythonPackage rec {
   ] ++ dask.optional-dependencies.array;
 
   nativeCheckInputs = [
-    sparse
+    pytest-xdist
     pytestCheckHook
   ];
 
   pythonImportsCheck = [ "dask_glm" ];
 
-  disabledTestPaths = [
-    # Circular dependency with dask-ml
-    "dask_glm/tests/test_estimators.py"
-    # Test tries to imort an obsolete method
-    "dask_glm/tests/test_utils.py"
-  ];
-
   disabledTests = [
-    # missing fixture with distributed>=2022.8.0
-    "test_determinism_distributed"
+    # ValueError: <class 'bool'> can be computed for one-element arrays only.
+    "test_dot_with_sparse"
   ];
 
   __darwinAllowLocalNetworking = true;
 
-  meta = with lib; {
+  meta = {
     description = "Generalized Linear Models with Dask";
     homepage = "https://github.com/dask/dask-glm/";
-    license = licenses.bsd3;
-    maintainers = [ ];
+    changelog = "https://github.com/dask/dask-glm/releases/tag/${version}";
+    license = lib.licenses.bsd3;
+    maintainers = with lib.maintainers; [ GaetanLepage ];
   };
 }

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

@@ -10,6 +10,7 @@
   # dependencies
   boost-histogram,
   dask,
+  dask-awkward,
 
   # tests
   pytestCheckHook,
@@ -17,14 +18,14 @@
 
 buildPythonPackage rec {
   pname = "dask-histogram";
-  version = "2024.12.1";
+  version = "2025.2.0";
   pyproject = true;
 
   src = fetchFromGitHub {
     owner = "dask-contrib";
     repo = "dask-histogram";
     tag = version;
-    hash = "sha256-chznfEsMFuIioIlTz6uNpVAkjMMoMXjS62R4luKxVZQ=";
+    hash = "sha256-5Ec/qzVc/7LDG6SJym1e76BbxmbVjKKQHckwtTs1+6M=";
   };
 
   build-system = [
@@ -35,6 +36,7 @@ buildPythonPackage rec {
   dependencies = [
     boost-histogram
     dask
+    dask-awkward
   ];
 
   nativeCheckInputs = [ pytestCheckHook ];
@@ -44,7 +46,7 @@ buildPythonPackage rec {
   meta = {
     description = "Histograms with task scheduling";
     homepage = "https://dask-histogram.readthedocs.io/";
-    changelog = "https://github.com/dask-contrib/dask-histogram/releases/tag/${src.tag}";
+    changelog = "https://github.com/dask-contrib/dask-histogram/releases/tag/${version}";
     license = with lib.licenses; [ bsd3 ];
     maintainers = with lib.maintainers; [ veprbl ];
   };

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

@@ -1,15 +1,21 @@
 {
   lib,
   buildPythonPackage,
-  pythonOlder,
   fetchFromGitHub,
+
+  # build-system
   setuptools,
   setuptools-scm,
+
+  # dependencies
   dask,
   numpy,
   scipy,
   pandas,
   pims,
+
+  # tests
+  pyarrow,
   pytestCheckHook,
   scikit-image,
 }:
@@ -19,8 +25,6 @@ buildPythonPackage rec {
   version = "2024.5.3";
   pyproject = true;
 
-  disabled = pythonOlder "3.9";
-
   src = fetchFromGitHub {
     owner = "dask";
     repo = "dask-image";
@@ -28,6 +32,11 @@ buildPythonPackage rec {
     hash = "sha256-kXCAqJ2Zgo/2Khvo2YcK+n4oGM219GyQ2Hsq9re1Lac=";
   };
 
+  postPatch = ''
+    substituteInPlace dask_image/ndinterp/__init__.py \
+      --replace-fail "out_bounds.ptp(axis=1)" "np.ptp(out_bounds, axis=1)"
+  '';
+
   build-system = [
     setuptools
     setuptools-scm
@@ -42,15 +51,27 @@ buildPythonPackage rec {
   ];
 
   nativeCheckInputs = [
+    pyarrow
     pytestCheckHook
     scikit-image
   ];
 
   pythonImportsCheck = [ "dask_image" ];
 
+  disabledTests = [
+    # The following tests are from 'tests/test_dask_image/test_ndmeasure/test_find_objects.py' and
+    # fail because of errrors on numpy slices
+    # AttributeError: 'str' object has no attribute 'start'
+    "test_find_objects"
+    "test_3d_find_objects"
+    # AssertionError (comparing slices)
+    "test_find_objects_with_empty_chunks"
+  ];
+
   meta = {
     description = "Distributed image processing";
     homepage = "https://github.com/dask/dask-image";
+    changelog = "https://github.com/dask/dask-image/releases/tag/v${version}";
     license = lib.licenses.bsdOriginal;
     maintainers = with lib.maintainers; [ GaetanLepage ];
   };

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

@@ -3,14 +3,13 @@
   stdenv,
   buildPythonPackage,
   fetchFromGitHub,
+  fetchpatch,
 
   # build-system
   hatch-vcs,
   hatchling,
-  setuptools-scm,
 
   # dependencies
-  dask-expr,
   dask-glm,
   distributed,
   multipledispatch,
@@ -29,25 +28,23 @@
 
 buildPythonPackage rec {
   pname = "dask-ml";
-  version = "2024.4.4";
+  version = "2025.1.0";
   pyproject = true;
 
   src = fetchFromGitHub {
     owner = "dask";
     repo = "dask-ml";
     tag = "v${version}";
-    hash = "sha256-ZiBpCk3b4Tk0Hwb4uapJLEx+Nb/qHFROCnkBTNGDzoU=";
+    hash = "sha256-DHxx0LFuJmGWYuG/WGHj+a5XHAEekBmlHUUb90rl2IY=";
   };
 
   build-system = [
     hatch-vcs
     hatchling
-    setuptools-scm
   ];
 
   dependencies =
     [
-      dask-expr
       dask-glm
       distributed
       multipledispatch
@@ -73,39 +70,14 @@ buildPythonPackage rec {
     pytestCheckHook
   ];
 
-  disabledTestPaths =
-    [
-      # AttributeError: 'csr_matrix' object has no attribute 'A'
-      # Fixed in https://github.com/dask/dask-ml/pull/996
-      "tests/test_svd.py"
-
-      # Tests fail with dask>=0.11.2
-      # RuntimeError: Not enough arguments provided
-      # Reported in https://github.com/dask/dask-ml/issues/1003
-      "tests/model_selection/test_incremental.py"
-    ]
-    ++ lib.optionals stdenv.isDarwin [
-      # RuntimeError: Not enough arguments provided: missing keys
-      "tests/model_selection/test_hyperband.py"
-      "tests/model_selection/test_incremental.py"
-      "tests/model_selection/test_incremental_warns.py"
-      "tests/model_selection/test_successive_halving.py"
-    ];
+  disabledTestPaths = [
+    # AttributeError: module 'numpy' has no attribute 'product'
+    "tests/test_svd.py"
+  ];
 
   disabledTests = [
-    # Flaky: `Arrays are not almost equal to 3 decimals` (although values do actually match)
-    "test_whitening"
-
-    # Tests fail with dask>=0.11.2
-    # RuntimeError: Not enough arguments provided
-    # Reported in https://github.com/dask/dask-ml/issues/1003
-    "test_basic"
-    "test_hyperband_patience"
-    "test_same_random_state_same_params"
-    "test_search_patience_infeasible_tol"
-    "test_sha_max_iter_and_metadata"
-    "test_warns_decay_rate"
-    "test_warns_decay_rate_wanted"
+    # AssertionError: Regex pattern did not match.
+    "test_unknown_category_transform_array"
   ];
 
   __darwinAllowLocalNetworking = true;

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

@@ -1,6 +1,5 @@
 {
   lib,
-  stdenv,
   buildPythonPackage,
   fetchFromGitHub,
 
@@ -27,168 +26,126 @@
   jinja2,
 
   # tests
-  arrow-cpp,
-  dask-expr,
   hypothesis,
   pytest-asyncio,
+  pytest-cov-stub,
+  pytest-mock,
   pytest-rerunfailures,
   pytest-xdist,
   pytestCheckHook,
+  versionCheckHook,
 }:
 
-let
-  self = buildPythonPackage rec {
-    pname = "dask";
-    version = "2024.12.1";
-    pyproject = true;
+buildPythonPackage rec {
+  pname = "dask";
+  version = "2025.1.0";
+  pyproject = true;
 
-    src = fetchFromGitHub {
-      owner = "dask";
-      repo = "dask";
-      tag = version;
-      hash = "sha256-QqvdldAHW2UYt1NXfk3Aa+oe97e+OpRbF8d6eKV3OJ4=";
-    };
+  src = fetchFromGitHub {
+    owner = "dask";
+    repo = "dask";
+    tag = version;
+    hash = "sha256-KBqOyf471mNg3L9dYmR7IRSltEtC+VgC+6ptsoKgVmM=";
+  };
 
-    build-system = [ setuptools ];
+  postPatch = ''
+    # versioneer hack to set version of GitHub package
+    echo "def get_versions(): return {'dirty': False, 'error': None, 'full-revisionid': None, 'version': '${version}'}" > dask/_version.py
 
-    dependencies = [
-      click
-      cloudpickle
-      fsspec
-      packaging
-      partd
-      pyyaml
-      importlib-metadata
-      toolz
-    ];
-
-    optional-dependencies = lib.fix (self: {
-      array = [ numpy ];
-      complete =
-        [
-          pyarrow
-          lz4
-        ]
-        ++ self.array
-        ++ self.dataframe
-        ++ self.distributed
-        ++ self.diagnostics;
-      dataframe = [
-        # dask-expr -> circular dependency with dask-expr
-        numpy
-        pandas
-      ];
-      distributed = [ distributed ];
-      diagnostics = [
-        bokeh
-        jinja2
-      ];
-    });
-
-    nativeCheckInputs =
-      [
-        dask-expr
-        pytestCheckHook
-        pytest-rerunfailures
-        pytest-xdist
-        # from panda[test]
-        hypothesis
-        pytest-asyncio
-      ]
-      ++ self.optional-dependencies.array
-      ++ self.optional-dependencies.dataframe
-      ++ lib.optionals (!arrow-cpp.meta.broken) [
-        # support is sparse on aarch64
-        pyarrow
-      ];
-
-    dontUseSetuptoolsCheck = true;
-
-    postPatch = ''
-      # versioneer hack to set version of GitHub package
-      echo "def get_versions(): return {'dirty': False, 'error': None, 'full-revisionid': None, 'version': '${version}'}" > dask/_version.py
-
-      substituteInPlace setup.py \
-        --replace-fail "import versioneer" "" \
-        --replace-fail "version=versioneer.get_version()," "version='${version}'," \
-        --replace-fail "cmdclass=versioneer.get_cmdclass()," ""
+    substituteInPlace setup.py \
+      --replace-fail "import versioneer" "" \
+      --replace-fail "version=versioneer.get_version()," "version='${version}'," \
+      --replace-fail "cmdclass=versioneer.get_cmdclass()," ""
 
       substituteInPlace pyproject.toml \
-        --replace-fail ', "versioneer[toml]==0.29"' "" \
-        --replace-fail " --durations=10" "" \
-        --replace-fail " --cov-config=pyproject.toml" "" \
-        --replace-fail "\"-v" "\" "
-    '';
+        --replace-fail ', "versioneer[toml]==0.29"' ""
+  '';
 
-    pytestFlagsArray = [
-      # Rerun failed tests up to three times
-      "--reruns 3"
-      # Don't run tests that require network access
-      "-m 'not network'"
-    ];
+  build-system = [ setuptools ];
 
-    disabledTests =
-      lib.optionals stdenv.hostPlatform.isDarwin [
-        # Test requires features of python3Packages.psutil that are
-        # blocked in sandboxed-builds
-        "test_auto_blocksize_csv"
-        # AttributeError: 'str' object has no attribute 'decode'
-        "test_read_dir_nometa"
+  dependencies = [
+    click
+    cloudpickle
+    fsspec
+    packaging
+    partd
+    pyyaml
+    importlib-metadata
+    toolz
+  ];
+
+  optional-dependencies = lib.fix (self: {
+    array = [ numpy ];
+    complete =
+      [
+        pyarrow
+        lz4
       ]
-      ++ lib.optionals (stdenv.hostPlatform.isDarwin && stdenv.hostPlatform.isAarch64) [
-        # concurrent.futures.process.BrokenProcessPool: A process in the process pool terminated abpruptly...
-        "test_foldby_tree_reduction"
-        "test_to_bag"
-      ]
-      ++ [
-        # https://github.com/dask/dask/issues/10347#issuecomment-1589683941
-        "test_concat_categorical"
-        # AttributeError: 'ArrowStringArray' object has no attribute 'tobytes'. Did you mean: 'nbytes'?
-        "test_dot"
-        "test_dot_nan"
-        "test_merge_column_with_nulls"
-        # FileNotFoundError: [Errno 2] No such file or directory: '/build/tmp301jryv_/createme/0.part'
-        "test_to_csv_nodir"
-        "test_to_json_results"
-        # FutureWarning: Those tests should be working fine when pandas will have been upgraded to 2.1.1
-        "test_apply"
-        "test_apply_infer_columns"
-      ];
-
-    __darwinAllowLocalNetworking = true;
-
-    pythonImportsCheck = [
-      "dask"
-      "dask.bag"
-      "dask.bytes"
-      "dask.diagnostics"
+      ++ self.array
+      ++ self.dataframe
+      ++ self.distributed
+      ++ self.diagnostics;
+    dataframe = [
+      pandas
+      pyarrow
+    ] ++ self.array;
+    distributed = [ distributed ];
+    diagnostics = [
+      bokeh
+      jinja2
     ];
+  });
 
-    doCheck = false;
+  nativeCheckInputs =
+    [
+      hypothesis
+      pyarrow
+      pytest-asyncio
+      pytest-cov-stub
+      pytest-mock
+      pytest-rerunfailures
+      pytest-xdist
+      pytestCheckHook
+      versionCheckHook
+    ]
+    ++ optional-dependencies.array
+    ++ optional-dependencies.dataframe;
+  versionCheckProgramArg = [ "--version" ];
 
-    # Enable tests via passthru to avoid cyclic dependency with dask-expr.
-    passthru.tests = {
-      check = self.overridePythonAttrs (old: {
-        doCheck = true;
-        pythonImportsCheck = [
-          # Requires the `dask.optional-dependencies.array` that are only in `nativeCheckInputs`
-          "dask.array"
-          # Requires the `dask.optional-dependencies.dataframe` that are only in `nativeCheckInputs`
-          "dask.dataframe"
-          "dask.dataframe.io"
-          "dask.dataframe.tseries"
-        ] ++ old.pythonImportsCheck;
-      });
-    };
+  pytestFlagsArray = [
+    # Rerun failed tests up to three times
+    "--reruns 3"
+    # Don't run tests that require network access
+    "-m 'not network'"
+  ];
 
-    meta = {
-      description = "Minimal task scheduling abstraction";
-      mainProgram = "dask";
-      homepage = "https://dask.org/";
-      changelog = "https://docs.dask.org/en/latest/changelog.html";
-      license = lib.licenses.bsd3;
-      maintainers = with lib.maintainers; [ GaetanLepage ];
-    };
+  disabledTests = [
+    # UserWarning: Insufficient elements for `head`. 10 elements requested, only 5 elements available. Try passing larger `npartitions` to `head`.
+    "test_set_index_head_nlargest_string"
+  ];
+
+  __darwinAllowLocalNetworking = true;
+
+  pythonImportsCheck = [
+    "dask"
+    "dask.bag"
+    "dask.bytes"
+    "dask.diagnostics"
+
+    # Requires the `dask.optional-dependencies.array` that are only in `nativeCheckInputs`
+    "dask.array"
+    # Requires the `dask.optional-dependencies.dataframe` that are only in `nativeCheckInputs`
+    "dask.dataframe"
+    "dask.dataframe.io"
+    "dask.dataframe.tseries"
+  ];
+
+  meta = {
+    description = "Minimal task scheduling abstraction";
+    mainProgram = "dask";
+    homepage = "https://dask.org/";
+    changelog = "https://docs.dask.org/en/latest/changelog.html";
+    license = lib.licenses.bsd3;
+    maintainers = with lib.maintainers; [ GaetanLepage ];
   };
-in
-self
+}

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

@@ -2,36 +2,42 @@
   lib,
   buildPythonPackage,
   fetchFromGitHub,
-  setuptools,
-  setuptools-scm,
+
+  # build-system
+  hatch-vcs,
+  hatchling,
+
+  # dependencies
   matplotlib,
   mplhep-data,
   numpy,
   packaging,
   uhi,
+
+  # tests
+  hist,
+  pytest-mock,
+  pytest-mpl,
   pytestCheckHook,
   scipy,
-  pytest-mpl,
-  pytest-mock,
   uproot,
-  hist,
 }:
 
 buildPythonPackage rec {
   pname = "mplhep";
-  version = "0.3.55";
+  version = "0.3.56";
   pyproject = true;
 
   src = fetchFromGitHub {
     owner = "scikit-hep";
     repo = "mplhep";
     tag = "v${version}";
-    hash = "sha256-7YkrrH9Bfn3ctjv+H6TXEDE8yS/wnjO7umuHIXeYTDU=";
+    hash = "sha256-sMJpJUEtIqmu7kCgZp43t9XLy/6nkDgKcxC4nFb+1po=";
   };
 
   build-system = [
-    setuptools
-    setuptools-scm
+    hatch-vcs
+    hatchling
   ];
 
   dependencies = [
@@ -43,12 +49,12 @@ buildPythonPackage rec {
   ];
 
   nativeCheckInputs = [
+    hist
+    pytest-mock
+    pytest-mpl
     pytestCheckHook
     scipy
-    pytest-mpl
-    pytest-mock
     uproot
-    hist
   ];
 
   disabledTests = [
@@ -62,6 +68,7 @@ buildPythonPackage rec {
   meta = {
     description = "Extended histogram plots on top of matplotlib and HEP compatible styling similar to current collaboration requirements (ROOT)";
     homepage = "https://github.com/scikit-hep/mplhep";
+    changelog = "https://github.com/scikit-hep/mplhep/releases/tag/v${version}";
     license = with lib.licenses; [ mit ];
     maintainers = with lib.maintainers; [ veprbl ];
   };

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

@@ -1,34 +1,36 @@
 {
   lib,
   buildPythonPackage,
+  fetchFromGitHub,
+
+  # build-system
+  hatchling,
+
+  # optional-dependencies
   # cudf,
   dask,
-  dask-expr,
-  duckdb,
-  fetchFromGitHub,
-  hatchling,
-  hypothesis,
   # modin,
   pandas,
   polars,
   pyarrow,
+
+  # tests
+  duckdb,
+  hypothesis,
   pytest-env,
   pytestCheckHook,
-  pythonOlder,
 }:
 
 buildPythonPackage rec {
   pname = "narwhals";
-  version = "1.22.0";
+  version = "1.26.0";
   pyproject = true;
 
-  disabled = pythonOlder "3.8";
-
   src = fetchFromGitHub {
     owner = "narwhals-dev";
     repo = "narwhals";
     tag = "v${version}";
-    hash = "sha256-I6nJJiiW1v04YH70OPxXKeO80N52nnCPKRzJLILEWmw=";
+    hash = "sha256-tGxRJauYD0mCA66Rd2i8jJsuDLVgyk35F7HRMR1ZkQs=";
   };
 
   build-system = [
@@ -39,8 +41,7 @@ buildPythonPackage rec {
     # cudf = [ cudf ];
     dask = [
       dask
-      dask-expr
-    ];
+    ] ++ dask.optional-dependencies.dataframe;
     # modin = [ modin ];
     pandas = [ pandas ];
     polars = [ polars ];
@@ -64,7 +65,7 @@ buildPythonPackage rec {
   meta = {
     description = "Lightweight and extensible compatibility layer between dataframe libraries";
     homepage = "https://github.com/narwhals-dev/narwhals";
-    changelog = "https://github.com/narwhals-dev/narwhals/releases/tag/${src.tag}";
+    changelog = "https://github.com/narwhals-dev/narwhals/releases/tag/v${version}";
     license = lib.licenses.mit;
     maintainers = with lib.maintainers; [ fab ];
   };

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

@@ -0,0 +1,54 @@
+{
+  lib,
+  buildPythonPackage,
+  fetchFromGitHub,
+  hatchling,
+  numpy,
+  scipy,
+  hypothesis,
+  pytestCheckHook,
+}:
+
+buildPythonPackage rec {
+  pname = "open-hypergraphs";
+  version = "0.1.2";
+  pyproject = true;
+
+  src = fetchFromGitHub {
+    owner = "statusfailed";
+    repo = "open-hypergraphs";
+    tag = "pypi-${version}";
+    hash = "sha256-ifcQXZDnOvo2XL7WYVFLv2iHWhImUSp3jqAPPYySNjU=";
+  };
+
+  build-system = [
+    hatchling
+  ];
+
+  dependencies = [
+    numpy
+    scipy
+  ];
+
+  pythonRelaxDeps = [
+    "numpy"
+    "scipy"
+  ];
+
+  nativeCheckInputs = [
+    pytestCheckHook
+    hypothesis
+  ];
+
+  pythonImportsCheck = [
+    "open_hypergraphs"
+  ];
+
+  meta = {
+    description = "Implementation of open hypergraphs for string diagrams";
+    homepage = "https://github.com/statusfailed/open-hypergraphs";
+    changelog = "https://github.com/statusfailed/open-hypergraphs/blob/${src.rev}/CHANGELOG.md";
+    license = lib.licenses.mit;
+    maintainers = with lib.maintainers; [ bcdarwin ];
+  };
+}

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

@@ -66,7 +66,7 @@
 
 let
   pname = "ray";
-  version = "2.42.0";
+  version = "2.42.1";
 in
 buildPythonPackage rec {
   inherit pname version;
@@ -87,28 +87,28 @@ buildPythonPackage rec {
       # curl https://pypi.org/pypi/ray/${version}/json | jq -r '.urls[] | "\(.digests.sha256)  \(.filename)"'
       hashes = {
         aarch64-darwin = {
-          cp39 = "4835c58b2e14f70badc059e9a6310cbfb51dec7a5b20fe712a4d193c85c9b2c5";
-          cp310 = "4bb3d88c478dd2cc3a17a66f0c47a73978608ce5579f92f77a468720763c2331";
-          cp311 = "7de151d403f351bb0fe3ed6f3f0e0258ce989871c60e4ccca2ab5bab7e9fc820";
-          cp312 = "4a3ab3d73541c4e1b8c0dca31d4006ba18b20ccf7eb7a7428f5dbf96e9736a83";
+          cp39 = "sha256-MijkhGUC4MW+rmm2mfyQcaBtPPv8DKXyvScHkkpS40s=";
+          cp310 = "sha256-YHJ/nHKo9xvE4U1H3E3ElNxZo8Sw0QiuBPpuWo5FIo8=";
+          cp311 = "sha256-8BlRTFIgqCL7wMOO0fdQXOx1uWGnYEq2d/1kd+M6Ki4";
+          cp312 = "sha256-orb2JZC7YF1m043rSV84MqbQMB2z9JatxU0SoURUHjc=";
         };
         aarch64-linux = {
-          cp39 = "sha256-NlE3pzeWzz6DlS2Y6Gv8W+1DRMjK1a9T2R9lvq5nL7g=";
-          cp310 = "sha256-MxCDruyfxiqy/Fkn0YM1idpZNUvChx8Xt6EBie7Q2uY=";
-          cp311 = "sha256-eb9KDQIX6i2O/UfeZ9nCKTBAGc6ZZ427FI9WXZakRuI=";
-          cp312 = "sha256-PnKHZmINbjEYajepBsB7gH2i86rPSxZ/bos3xy7U3mM=";
+          cp39 = "sha256-V/epiChYGASp537Jnz/d1UIl2r2pwNmmdx630i5pMHI=";
+          cp310 = "sha256-kNi/DBr+I2SjP1NWNnYaV0440oOwQGE7joY5vhQdBKA=";
+          cp311 = "sha256-xdeeSYrOtapbPlMH7HSV9YSGtCZrOP7qOXm5iB6VDE8=";
+          cp312 = "sha256-nKXH/V9nboMXgS53AY9i+HxbOa4Op/n4DW6YzSL99Vo=";
         };
         x86_64-darwin = {
-          cp39 = "aa5692cc8f584c5f531074fd7283004acfbc538b36101f6c403d4ff1837aca52";
-          cp310 = "515bc5d9811cc4bb982daf6c7b2c82453cccc886e41514e03bc3342293acb109";
-          cp311 = "6e2b8ad794729f068742ffc2547fd322fa6ef31e46e886ac6e53690b86415cf0";
-          cp312 = "6b117e01d0304305e459cccc78e1b46dc1ee60227a2afd8569d97b7a2bc516ed";
+          cp39 = "sha256-EgWa4hgQ0K6LCcx8N51SzRCIgbi56cYo0ywEWXD8KsQ=";
+          cp310 = "sha256-ufLyDLLd31LsB+JU84upFGe4bfETMImdauI2GD45UnU=";
+          cp311 = "sha256-ToHIlnedis5mr8KsdQUIBtsQLZUBou1uovOAEJYsyn8=";
+          cp312 = "sha256-t+9IkWQyoNXMyr78jL2L8MDSrQuIQczjzr0bEzmWyjY=";
         };
         x86_64-linux = {
-          cp39 = "sha256-rGz4bKRemxRdHCLPpHBpzdyq3ms/3Bsd5adhEJfZbX4=";
-          cp310 = "sha256-i+C9U2ErZEbDm09OnLS9NUhknVISR3NJzPvcklCHgik=";
-          cp311 = "sha256-6JJLbtCGZVsr+LP/KaxFPR6Kp6TW0s6WW7ql+xfRNk8=";
-          cp312 = "sha256-4+3gNnqyj72GiiL05M2sRFQ8ZU4svFo7SCF45/cl6iw=";
+          cp39 = "sha256-LUATaRjN1/YHEKpGRS7vqcDkYOLE51svxXI8c9521wE=";
+          cp310 = "sha256-AYAiSeuc02Mm5v4LqoiRb6YGJzHaElBryT5zbxcRHdQ=";
+          cp311 = "sha256-z1vEMnUuKbyADjAAO9ZJM9eFND9ZqajDGoOc2YH8UIQ=";
+          cp312 = "sha256-4Np/+6ctOsJ1B4FvAPKtM0+BWDX0e4sEghzFdQ7Flkc=";
         };
       };
     in

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

@@ -1,23 +1,24 @@
 {
   lib,
   buildPythonPackage,
-  pythonOlder,
-  fetchPypi,
+  fetchFromGitHub,
+
+  # build-system
   setuptools,
-  confluent-kafka,
-  dask,
-  dask-expr,
-  distributed,
-  flaky,
-  graphviz,
-  networkx,
-  pytest-asyncio,
-  pytestCheckHook,
-  requests,
+
+  # dependencies
   six,
   toolz,
   tornado,
   zict,
+
+  # tests
+  dask,
+  distributed,
+  flaky,
+  pandas,
+  pyarrow,
+  pytestCheckHook,
 }:
 
 buildPythonPackage rec {
@@ -25,17 +26,16 @@ buildPythonPackage rec {
   version = "0.6.4";
   pyproject = true;
 
-  disabled = pythonOlder "3.6";
-
-  src = fetchPypi {
-    inherit pname version;
-    hash = "sha256-VXfWkEwuxInBQVQJV3IQXgGVRkiBmYfUZCBMbjyWNPM=";
+  src = fetchFromGitHub {
+    owner = "python-streamz";
+    repo = "streamz";
+    tag = version;
+    hash = "sha256-lSb3gl+TSIzz4BZzxH8zXu74HvzSntOAoVQUUJKIEvA=";
   };
 
   build-system = [ setuptools ];
 
   dependencies = [
-    networkx
     six
     toolz
     tornado
@@ -43,15 +43,12 @@ buildPythonPackage rec {
   ];
 
   nativeCheckInputs = [
-    confluent-kafka
     dask
-    dask-expr
     distributed
     flaky
-    graphviz
-    pytest-asyncio
+    pandas
+    pyarrow
     pytestCheckHook
-    requests
   ];
 
   pythonImportsCheck = [ "streamz" ];
@@ -63,24 +60,17 @@ buildPythonPackage rec {
     "test_partition_then_scatter_sync"
     "test_sync"
     "test_sync_2"
-    # Test fail in the sandbox
-    "test_tcp_async"
-    "test_tcp"
-    "test_partition_timeout"
+
     # Tests are flaky
-    "test_from_iterable"
     "test_buffer"
   ];
 
-  disabledTestPaths = [
-    # Disable kafka tests
-    "streamz/tests/test_kafka.py"
-  ];
+  __darwinAllowLocalNetworking = true;
 
-  meta = with lib; {
+  meta = {
     description = "Pipelines to manage continuous streams of data";
     homepage = "https://github.com/python-streamz/streamz";
-    license = licenses.bsd3;
-    maintainers = [ ];
+    license = lib.licenses.bsd3;
+    maintainers = with lib.maintainers; [ GaetanLepage ];
   };
 }

pkgs/os-specific/bsd/freebsd/pkgs/compat/package.nix

@@ -175,7 +175,7 @@ mkDerivation {
   # Compat is for making other platforms look like FreeBSD (e.g. to
   # build build-time dependencies for building FreeBSD packages). It is
   # not needed when building for FreeBSD.
-  meta.broken = stdenv.hostPlatform.isFreeBSD;
+  meta.platforms = lib.platforms.linux;
 
   alwaysKeepStatic = true;
 }

pkgs/os-specific/bsd/freebsd/pkgs/fstat.nix

@@ -0,0 +1,16 @@
+{
+  lib,
+  mkDerivation,
+}:
+mkDerivation {
+  path = "usr.bin/fstat";
+
+  outputs = [
+    "out"
+    "man"
+    "debug"
+  ];
+
+  meta.mainProgram = "fstat";
+  meta.platforms = lib.platforms.freebsd;
+}

pkgs/os-specific/bsd/freebsd/pkgs/mount_nullfs.nix

@@ -0,0 +1,10 @@
+{
+  lib,
+  mkDerivation,
+}:
+mkDerivation {
+  path = "sbin/mount_nullfs";
+  extraPaths = [ "sbin/mount" ];
+
+  meta.platforms = lib.platforms.freebsd;
+}

pkgs/os-specific/bsd/freebsd/pkgs/procstat.nix

@@ -0,0 +1,24 @@
+{
+  lib,
+  mkDerivation,
+  libxo,
+  libsbuf,
+}:
+mkDerivation {
+  path = "usr.bin/procstat";
+  buildInputs = [
+    libxo
+    libsbuf
+  ];
+
+  outputs = [
+    "out"
+    "man"
+    "debug"
+  ];
+
+  MK_TESTS = "no";
+
+  meta.platforms = lib.platforms.freebsd;
+  meta.mainProgram = "procstat";
+}

pkgs/os-specific/bsd/freebsd/pkgs/umount.nix

@@ -0,0 +1,19 @@
+{
+  lib,
+  mkDerivation,
+}:
+mkDerivation {
+  path = "sbin/umount";
+  extraPaths = [
+    "sbin/mount"
+    "usr.sbin/rpc.umntall"
+  ];
+
+  outputs = [
+    "out"
+    "man"
+    "debug"
+  ];
+
+  meta.platforms = lib.platforms.freebsd;
+}

pkgs/os-specific/bsd/openbsd/pkgs/dmesg.nix

@@ -1,9 +1,7 @@
-{ mkDerivation, libkvm }:
+{ mkDerivation }:
 mkDerivation {
   path = "sbin/dmesg";
 
-  buildInputs = [ libkvm ];
-
   postPatch = ''
     sed -i /DPADD/d $BSDSRCDIR/sbin/dmesg/Makefile
   '';

pkgs/os-specific/bsd/openbsd/pkgs/fsck/fsck-path.patch

@@ -0,0 +1,34 @@
+diff --git a/sbin/fsck/fsck.c b/sbin/fsck/fsck.c
+index 19e730a484f..cb548971abd 100644
+--- a/sbin/fsck/fsck.c
++++ b/sbin/fsck/fsck.c
+@@ -115,6 +115,8 @@ main(int argc, char *argv[])
+ 		err(1, "unveil %s", _PATH_FSTAB);
+ 	if (unveil("/sbin", "x") == -1)
+ 		err(1, "unveil /sbin");
++	if (unveil("/nix/store", "rx") == -1)
++		err(1, "unveil /nix/store");
+ 	if (pledge("stdio rpath wpath disklabel proc exec", NULL) == -1)
+ 		err(1, "pledge");
+ 
+@@ -308,18 +310,8 @@ checkfs(const char *vfstype, const char *spec, const char *mntpt, void *auxarg,
+ 			_exit(0);
+ 
+ 		/* Go find an executable. */
+-		edir = edirs;
+-		do {
+-			(void)snprintf(execname,
+-			    sizeof(execname), "%s/fsck_%s", *edir, vfstype);
+-			execv(execname, (char * const *)argv);
+-			if (errno != ENOENT) {
+-				if (spec)
+-					warn("exec %s for %s", execname, spec);
+-				else
+-					warn("exec %s", execname);
+-			}
+-		} while (*++edir != NULL);
++		(void)snprintf(execname, sizeof(execname), "fsck_%s", vfstype);
++		execvp(execname, (char * const *)argv);
+ 
+ 		if (errno == ENOENT) {
+ 			if (spec)

pkgs/os-specific/bsd/openbsd/pkgs/fsck/package.nix

@@ -0,0 +1,6 @@
+{ mkDerivation }:
+mkDerivation {
+  path = "sbin/fsck";
+
+  patches = [ ./fsck-path.patch ];
+}

pkgs/os-specific/bsd/openbsd/pkgs/fsck_ffs.nix

@@ -0,0 +1,8 @@
+{ mkDerivation }:
+mkDerivation {
+  path = "sbin/fsck_ffs";
+  extraPaths = [
+    "sbin/fsck"
+    "sys/ufs/ffs"
+  ];
+}

pkgs/os-specific/bsd/openbsd/pkgs/fsck_msdos.nix

@@ -0,0 +1,5 @@
+{ mkDerivation }:
+mkDerivation {
+  path = "sbin/fsck_msdos";
+  extraPaths = [ "sbin/fsck" ];
+}

pkgs/os-specific/bsd/openbsd/pkgs/libc.nix

@@ -8,6 +8,7 @@
   librpcsvc,
   libutil,
   libexecinfo,
+  libkvm,
   rtld,
   version,
 }:
@@ -38,6 +39,7 @@ symlinkJoin rec {
           librpcsvc
           libutil
           libexecinfo
+          libkvm
         ]
         ++ (lib.optional (!stdenvNoLibc.hostPlatform.isStatic) rtld)
       );

pkgs/os-specific/bsd/openbsd/pkgs/libkvm.nix

@@ -3,4 +3,6 @@
 }:
 mkDerivation {
   path = "lib/libkvm";
+
+  libcMinimal = true;
 }

pkgs/os-specific/bsd/openbsd/pkgs/makedev/bash.patch

@@ -0,0 +1,18 @@
+diff --git a/etc/MAKEDEV.common b/etc/MAKEDEV.common
+index 1e7bb3d235a..1cc64a38985 100644
+--- a/etc/MAKEDEV.common
++++ b/etc/MAKEDEV.common
+@@ -315,10 +315,10 @@ _mkdev(pty, pty*, {-if [ $U -gt 15 ]; then
+ 		echo bad unit for pty in: $i
+ 		continue
+ 	fi
+-	set -A letters p q r s t u v w x y z P Q R S T
+-	set -A suffixes 0 1 2 3 4 5 6 7 8 9 a b c d e f g h i j k l m n o p q \
++	letters=(p q r s t u v w x y z P Q R S T)
++	suffixes=(0 1 2 3 4 5 6 7 8 9 a b c d e f g h i j k l m n o p q \
+ 	    r s t u v w x y z A B C D E F G H I J K L M N O P Q R S T U V W X \
+-	    Y Z
++	    Y Z)
+ 
+ 	name=${letters[$U]}
+ 	n=0

pkgs/os-specific/bsd/openbsd/pkgs/makedev/package.nix

@@ -0,0 +1,37 @@
+{
+  mkDerivation,
+  runtimeShell,
+  m4,
+}:
+
+mkDerivation {
+  pname = "MAKEDEV";
+  path = "etc";
+
+  patches = [ ./bash.patch ];
+
+  extraNativeBuildInputs = [
+    m4
+  ];
+
+  preBuild = ''
+    mkdir -p $out/share/doc
+  '';
+  buildTargets = [ "MAKEDEV" ];
+
+  # patch some build artifacts
+  # gnu m4 doesn't seem to recognize the expr() macro but it's only used for simple arithmetic so we convert it to bash
+  postBuild = ''
+    substituteInPlace etc.$TARGET_MACHINE_ARCH/MAKEDEV --replace-fail "/bin/sh -" "${runtimeShell}"
+    sed -E -i -e '/^PATH=.*/d' -e 's/expr\((.*)\)/$((\1))/g' etc.$TARGET_MACHINE_ARCH/MAKEDEV
+  '';
+
+  # The install procedure is also weird since this is supposed to live in /dev
+  postInstall = ''
+    mkdir -p $out/bin
+    cp etc.$TARGET_MACHINE_ARCH/MAKEDEV $out/bin
+    chmod +x $out/bin/MAKEDEV
+  '';
+
+  meta.mainProgram = "MAKEDEV";
+}

pkgs/os-specific/bsd/openbsd/pkgs/pkill.nix

@@ -1,14 +1,9 @@
 {
   mkDerivation,
-  libkvm,
 }:
 mkDerivation {
   path = "usr.bin/pkill";
 
-  buildInputs = [
-    libkvm
-  ];
-
   postPatch = ''
     sed -i /DPADD/d $BSDSRCDIR/usr.bin/pkill/Makefile
   '';

pkgs/os-specific/bsd/openbsd/pkgs/ps.nix

@@ -1,8 +1,7 @@
-{ mkDerivation, libkvm }:
+{ mkDerivation }:
 mkDerivation {
   path = "bin/ps";
 
-  buildInputs = [ libkvm ];
   postPatch = ''
     sed -i /DPADD/d $BSDSRCDIR/bin/ps/Makefile
   '';

pkgs/os-specific/bsd/openbsd/pkgs/rc/boot-phases.patch

@@ -0,0 +1,146 @@
+OpenBSD's rc is supremely, supremely uncooperative when it comes to
+customization and configuration, providing exactly two places to inject
+services (pkg_scripts from rc.conf and /etc/rc.local), which are very much not
+useful for configuring more intimate parts of the boot process. This patch
+pulls the scripts to start at various injection points from /etc/rc.order. It
+also removes some of the parts of the boot script which are inappropriate for a
+nix-based system, for example, re-linking code objects and setting PATH.
+
+diff --git a/etc/rc b/etc/rc
+index 9d87fac8caf..581c1e3f4ab 100644
+--- a/etc/rc
++++ b/etc/rc
+@@ -9,6 +9,10 @@ set +o sh
+ 
+ # Subroutines (have to come first).
+ 
++daemon_phase() {
++	. /etc/rc.order/$1
++}
++
+ # Strip in- and whole-line comments from a file.
+ # Strip leading and trailing whitespace if IFS is set.
+ # Usage: stripcom /path/to/file
+@@ -337,7 +341,6 @@ trap : 3	# Shouldn't be needed.
+ 
+ export HOME=/
+ export INRC=1
+-export PATH=/sbin:/bin:/usr/sbin:/usr/bin
+ 
+ # /etc/myname contains my symbolic name.
+ if [[ -f /etc/myname ]]; then
+@@ -413,17 +416,12 @@ fi
+ # From now on, allow user to interrupt (^C) the boot process.
+ trap "echo 'Boot interrupted.'; exit 1" 3
+ 
+-# Unmount all filesystems except root.
+-umount -a >/dev/null 2>&1
+-
+ # Mount all filesystems except those of type NFS and VND.
+ mount -a -t nonfs,vnd
+ 
+ # Re-mount the root filesystem read/writeable. (root on nfs requires this,
+ # others aren't hurt.)
+ mount -uw /
+-chmod og-rwx /bsd
+-ln -fh /bsd /bsd.booted
+ 
+ rm -f /fastboot
+ 
+@@ -483,9 +481,9 @@ mount -s /var >/dev/null 2>&1		# cannot be on NFS
+ mount -s /var/log >/dev/null 2>&1	# cannot be on NFS
+ mount -s /usr >/dev/null 2>&1		# if NFS, fstab must use IP address
+ 
+-reorder_libs 2>&1 |&
++daemon_phase 10
+ 
+-start_daemon slaacd dhcpleased resolvd >/dev/null 2>&1
++daemon_phase 20
+ 
+ echo 'starting network'
+ 
+@@ -495,12 +493,10 @@ ifconfig -g carp carpdemote 128
+ 
+ sh /etc/netstart
+ 
+-start_daemon unwind >/dev/null 2>&1
++daemon_phase 30
+ 
+ random_seed
+ 
+-wait_reorder_libs
+-
+ # Load pf rules and bring up pfsync interface.
+ if [[ $pf != NO ]]; then
+ 	if [[ -f /etc/pf.conf ]]; then
+@@ -522,8 +518,7 @@ dmesg >/var/run/dmesg.boot
+ make_keys
+ 
+ echo -n 'starting early daemons:'
+-start_daemon syslogd ldattach pflogd nsd unbound ntpd
+-start_daemon iscsid isakmpd iked sasyncd ldapd npppd
++daemon_phase 40
+ echo '.'
+ 
+ # Load IPsec rules.
+@@ -532,11 +527,7 @@ if [[ $ipsec != NO && -f /etc/ipsec.conf ]]; then
+ fi
+ 
+ echo -n 'starting RPC daemons:'
+-start_daemon portmap
+-if [[ -n $(domainname) ]]; then
+-	start_daemon ypldap ypserv ypbind
+-fi
+-start_daemon mountd nfsd lockd statd amd
++daemon_phase 50
+ echo '.'
+ 
+ # Check and mount remaining file systems and enable additional swap.
+@@ -626,43 +617,24 @@ echo 'preserving editor files.'; /usr/libexec/vi.recover
+ run_upgrade_script sysmerge
+ 
+ echo -n 'starting network daemons:'
+-start_daemon ldomd sshd snmpd ldpd ripd ospfd ospf6d bgpd ifstated
+-start_daemon relayd dhcpd dhcrelay mrouted dvmrpd radiusd eigrpd route6d
+-start_daemon rad hostapd lpd smtpd slowcgi bgplgd httpd ftpd
+-start_daemon ftpproxy ftpproxy6 tftpd tftpproxy identd inetd rarpd bootparamd
+-start_daemon rbootd mopd vmd spamd spamlogd sndiod
++daemon_phase 60
+ echo '.'
+ 
+ # If rc.firsttime exists, run it just once, and make sure it is deleted.
+ run_upgrade_script firsttime
+ 
+-# Run rc.d(8) scripts from packages.
+-if [[ -n $pkg_scripts ]]; then
+-	echo -n 'starting package daemons:'
+-	for _daemon in $pkg_scripts; do
+-		if [[ -x /etc/rc.d/$_daemon ]]; then
+-			start_daemon $_daemon
+-		else
+-			echo -n " ${_daemon}(absent)"
+-		fi
+-	done
+-	echo '.'
+-fi
+-
+ [[ -f /etc/rc.local ]] && sh /etc/rc.local
+ 
++daemon_phase 70
++
+ # Disable carp interlock.
+ ifconfig -g carp -carpdemote 128
+ 
+ mixerctl_conf
+ 
+ echo -n 'starting local daemons:'
+-start_daemon apmd sensorsd hotplugd watchdogd cron wsmoused xenodm
++daemon_phase 80
+ echo '.'
+ 
+-# Re-link the kernel, placing the objects in a random order.
+-# Replace current with relinked kernel and inform root about it.
+-/usr/libexec/reorder_kernel &
+-
+ date
+ exit 0

pkgs/os-specific/bsd/openbsd/pkgs/rc/package.nix

@@ -0,0 +1,18 @@
+{
+  mkDerivation,
+}:
+mkDerivation {
+  pname = "rc";
+  path = "etc";
+
+  patches = [ ./boot-phases.patch ];
+
+  buildPhase = ":";
+
+  installPhase = ''
+    mkdir -p $out/etc/rc.d
+    cp rc $out/etc
+    cp rc.d/rc.subr $out/etc/rc.d
+    chmod +x $out/etc/rc
+  '';
+}

pkgs/os-specific/bsd/openbsd/pkgs/reboot.nix

@@ -0,0 +1,4 @@
+{ mkDerivation }:
+mkDerivation {
+  path = "sbin/reboot";
+}

pkgs/os-specific/bsd/openbsd/pkgs/shutdown.nix

@@ -1,8 +1,17 @@
-{ mkDerivation }:
+{
+  mkDerivation,
+  reboot,
+  wall,
+}:
 mkDerivation {
   path = "sbin/shutdown";
 
-  preBuild = ''
-    sed -i 's/4550/0550/' Makefile
+  postPatch = ''
+    sed -i 's/4550/0550/' $BSDSRCDIR/sbin/shutdown/Makefile
+
+    substituteInPlace $BSDSRCDIR/sbin/shutdown/pathnames.h \
+      --replace-fail /sbin/halt ${reboot}/bin/halt \
+      --replace-fail /sbin/reboot ${reboot}/bin/reboot \
+      --replace-fail /usr/bin/wall ${wall}/bin/wall
   '';
 }

pkgs/os-specific/bsd/openbsd/pkgs/vmstat.nix

@@ -1,8 +1,7 @@
-{ mkDerivation, libkvm }:
+{ mkDerivation }:
 mkDerivation {
   path = "usr.bin/vmstat";
 
-  buildInputs = [ libkvm ];
   postPatch = ''
     sed -i /DPADD/d $BSDSRCDIR/usr.bin/vmstat/Makefile
   '';

pkgs/os-specific/bsd/openbsd/pkgs/wall.nix

@@ -0,0 +1,9 @@
+{ mkDerivation }:
+mkDerivation {
+  path = "usr.bin/wall";
+
+  postPatch = ''
+    sed -i /BINMODE/d $BSDSRCDIR/usr.bin/wall/Makefile
+    sed -i /BINGRP/d $BSDSRCDIR/usr.bin/wall/Makefile
+  '';
+}

pkgs/tools/compression/xz/default.nix

@@ -2,6 +2,7 @@
   lib,
   stdenv,
   fetchurl,
+  autoreconfHook,
   enableStatic ? stdenv.hostPlatform.isStatic,
   writeScript,
   testers,
@@ -37,6 +38,10 @@ stdenv.mkDerivation (finalAttrs: {
   enableParallelBuilding = true;
   doCheck = true;
 
+  nativeBuildInputs = lib.optionals stdenv.hostPlatform.isOpenBSD [
+    autoreconfHook
+  ];
+
   # this could be accomplished by updateAutotoolsGnuConfigScriptsHook, but that causes infinite recursion
   # necessary for FreeBSD code path in configure
   postPatch = ''

pkgs/top-level/python-aliases.nix

@@ -142,6 +142,7 @@ mapAliases ({
   cx_Freeze = cx-freeze; # added 2023-08-02
   cx_oracle = cx-oracle; # added 2024-01-03
   d2to1 = throw "d2to1 is archived and no longer works with setuptools v68"; # added 2023-07-30
+  dask-expr = throw "dask-expr was removed because its features are available in dask"; # added 2025-02-07
   dask-xgboost = throw "dask-xgboost was removed because its features are available in xgboost"; # added 2022-05-24
   dash-renderer = throw "dash-renderer has been removed since it is abandoned"; # added 2025-01-01
   dateutil = python-dateutil; # added 2021-07-03

pkgs/top-level/python-packages.nix

@@ -2961,8 +2961,6 @@ self: super: with self; {
 
   dask-awkward = callPackage ../development/python-modules/dask-awkward { };
 
-  dask-expr = callPackage ../development/python-modules/dask-expr { };
-
   dask-gateway = callPackage ../development/python-modules/dask-gateway { };
 
   dask-gateway-server = callPackage ../development/python-modules/dask-gateway-server { };
@@ -9747,6 +9745,8 @@ self: super: with self; {
 
   open-garage = callPackage ../development/python-modules/open-garage { };
 
+  open-hypergraphs = callPackage ../development/python-modules/open-hypergraphs { };
+
   open-interpreter = callPackage ../development/python-modules/open-interpreter { };
 
   open-meteo = callPackage ../development/python-modules/open-meteo { };