From 1cb9c4550dc2dee415980f21e276578948071ad0 Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Fri, 7 Feb 2025 11:45:28 +0100
Subject: [PATCH 01/19] python312Packages.dask-expr: remove (now included in
 dask)

---
 .../python-modules/dask-expr/default.nix      | 65 -------------------
 pkgs/top-level/python-aliases.nix             |  1 +
 pkgs/top-level/python-packages.nix            |  2 -
 3 files changed, 1 insertion(+), 67 deletions(-)
 delete mode 100644 pkgs/development/python-modules/dask-expr/default.nix

diff --git a/pkgs/development/python-modules/dask-expr/default.nix b/pkgs/development/python-modules/dask-expr/default.nix
deleted file mode 100644
index c7bb6c734ee9..000000000000
--- a/pkgs/development/python-modules/dask-expr/default.nix
+++ /dev/null
@@ -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 ];
-  };
-}
diff --git a/pkgs/top-level/python-aliases.nix b/pkgs/top-level/python-aliases.nix
index 434e1b6f3cd9..c87843dcb618 100644
--- a/pkgs/top-level/python-aliases.nix
+++ b/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
diff --git a/pkgs/top-level/python-packages.nix b/pkgs/top-level/python-packages.nix
index 84f44003ad7a..5a0133d8743d 100644
--- a/pkgs/top-level/python-packages.nix
+++ b/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 { };

From 24c5862bbec741e99e5b288c7de2177e4f5ae74b Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Fri, 7 Feb 2025 11:46:55 +0100
Subject: [PATCH 02/19] python312Packages.dask: 2024.12.1 -> 2025.1.0

Diff: https://github.com/dask/dask/compare/refs/tags/2024.12.1...2025.1.0

Changelog: https://docs.dask.org/en/latest/changelog.html
---
 .../python-modules/dask/default.nix           | 272 ++++++++----------
 1 file changed, 115 insertions(+), 157 deletions(-)

diff --git a/pkgs/development/python-modules/dask/default.nix b/pkgs/development/python-modules/dask/default.nix
index 93b38b11b1f7..b37ddce56526 100644
--- a/pkgs/development/python-modules/dask/default.nix
+++ b/pkgs/development/python-modules/dask/default.nix
@@ -1,6 +1,5 @@
 {
   lib,
-  stdenv,
   buildPythonPackage,
   fetchFromGitHub,
 
@@ -27,168 +26,127 @@
   jinja2,
 
   # tests
-  arrow-cpp,
-  dask-expr,
   hypothesis,
   pytest-asyncio,
+  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=";
-    };
-
-    build-system = [ setuptools ];
-
-    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 pyproject.toml \
-        --replace-fail ', "versioneer[toml]==0.29"' "" \
-        --replace-fail " --durations=10" "" \
-        --replace-fail " --cov-config=pyproject.toml" "" \
-        --replace-fail "\"-v" "\" "
-    '';
-
-    pytestFlagsArray = [
-      # Rerun failed tests up to three times
-      "--reruns 3"
-      # Don't run tests that require network access
-      "-m 'not network'"
-    ];
-
-    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"
-      ]
-      ++ 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"
-    ];
-
-    doCheck = false;
-
-    # 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;
-      });
-    };
-
-    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 ];
-    };
+  src = fetchFromGitHub {
+    owner = "dask";
+    repo = "dask";
+    tag = version;
+    hash = "sha256-KBqOyf471mNg3L9dYmR7IRSltEtC+VgC+6ptsoKgVmM=";
   };
-in
-self
+
+  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 pyproject.toml \
+      --replace-fail ', "versioneer[toml]==0.29"' "" \
+      --replace-fail " --durations=10" "" \
+      --replace-fail " --cov-config=pyproject.toml" "" \
+      --replace-fail "\"-v" "\" "
+  '';
+
+  build-system = [ setuptools ];
+
+  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 = [
+      pandas
+      pyarrow
+    ] ++ self.array;
+    distributed = [ distributed ];
+    diagnostics = [
+      bokeh
+      jinja2
+    ];
+  });
+
+  nativeCheckInputs =
+    [
+      hypothesis
+      pytest-asyncio
+      pytest-mock
+      pytest-rerunfailures
+      pytest-xdist
+      pytestCheckHook
+      versionCheckHook
+      pyarrow
+    ]
+    ++ optional-dependencies.array
+    ++ optional-dependencies.dataframe;
+  versionCheckProgramArg = [ "--version" ];
+
+  pytestFlagsArray = [
+    # Rerun failed tests up to three times
+    "--reruns 3"
+    # Don't run tests that require network access
+    "-m 'not network'"
+  ];
+
+  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 ];
+  };
+}

From 43ef67841e9ccc78e7b9d9684b741f9b9c4cab77 Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Fri, 7 Feb 2025 12:41:10 +0100
Subject: [PATCH 03/19] python312Packages.streamz: cleanup

---
 .../python-modules/streamz/default.nix        | 58 ++++++++-----------
 1 file changed, 24 insertions(+), 34 deletions(-)

diff --git a/pkgs/development/python-modules/streamz/default.nix b/pkgs/development/python-modules/streamz/default.nix
index eea52b8fa8f2..4a4e8855d22a 100644
--- a/pkgs/development/python-modules/streamz/default.nix
+++ b/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;
+    license = lib.licenses.bsd3;
     maintainers = [ ];
   };
 }

From 57778e074c29671facff76729fad59aa3b3af92e Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Fri, 7 Feb 2025 12:41:38 +0100
Subject: [PATCH 04/19] python312Packages.streamz: add GaetanLepage as
 maintainer

---
 pkgs/development/python-modules/streamz/default.nix | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/pkgs/development/python-modules/streamz/default.nix b/pkgs/development/python-modules/streamz/default.nix
index 4a4e8855d22a..5aab96e7c462 100644
--- a/pkgs/development/python-modules/streamz/default.nix
+++ b/pkgs/development/python-modules/streamz/default.nix
@@ -71,6 +71,6 @@ buildPythonPackage rec {
     description = "Pipelines to manage continuous streams of data";
     homepage = "https://github.com/python-streamz/streamz";
     license = lib.licenses.bsd3;
-    maintainers = [ ];
+    maintainers = with lib.maintainers; [ GaetanLepage ];
   };
 }

From b6cc264c8a30a2d9171732946301d58a7674ac13 Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Fri, 7 Feb 2025 14:29:01 +0100
Subject: [PATCH 05/19] python312Packages.narwhals: 1.22.0 -> 1.25.2

Diff: https://github.com/narwhals-dev/narwhals/compare/refs/tags/v1.22.0...v1.25.2

Changelog: https://github.com/narwhals-dev/narwhals/releases/tag/v1.25.2
---
 .../python-modules/narwhals/default.nix       | 25 ++++++++++---------
 1 file changed, 13 insertions(+), 12 deletions(-)

diff --git a/pkgs/development/python-modules/narwhals/default.nix b/pkgs/development/python-modules/narwhals/default.nix
index 5aa36f62364c..f96998a32908 100644
--- a/pkgs/development/python-modules/narwhals/default.nix
+++ b/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 = "1.25.2";
   pyproject = true;
 
-  disabled = pythonOlder "3.8";
-
   src = fetchFromGitHub {
     owner = "narwhals-dev";
     repo = "narwhals";
     tag = "v${version}";
-    hash = "sha256-I6nJJiiW1v04YH70OPxXKeO80N52nnCPKRzJLILEWmw=";
+    hash = "sha256-cp/Ang5RXLpgTdpOHRKz9fGN9D+SgFC5KhF3ukf8G+w=";
   };
 
   build-system = [
@@ -39,7 +41,6 @@ buildPythonPackage rec {
     # cudf = [ cudf ];
     dask = [
       dask
-      dask-expr
     ];
     # modin = [ modin ];
     pandas = [ pandas ];
@@ -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 ];
   };

From f1309365070057256fdd32bc63ece36278ec3b5d Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Fri, 7 Feb 2025 14:37:28 +0100
Subject: [PATCH 06/19] python312Packages.dask-glm: add GaetanLepage as
 maintainer

---
 pkgs/development/python-modules/dask-glm/default.nix | 1 +
 1 file changed, 1 insertion(+)

diff --git a/pkgs/development/python-modules/dask-glm/default.nix b/pkgs/development/python-modules/dask-glm/default.nix
index a4bead52b43b..7fbb0359e2ca 100644
--- a/pkgs/development/python-modules/dask-glm/default.nix
+++ b/pkgs/development/python-modules/dask-glm/default.nix
@@ -63,5 +63,6 @@ buildPythonPackage rec {
     homepage = "https://github.com/dask/dask-glm/";
     license = licenses.bsd3;
     maintainers = [ ];
+    maintainers = with maintainers; [ GaetanLepage ];
   };
 }

From 8e0c34c2824abbd1fbf9360b535980fbf02fe8bf Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Fri, 7 Feb 2025 14:38:52 +0100
Subject: [PATCH 07/19] python312Packages.dask-glm: fix build

---
 .../python-modules/dask-glm/default.nix       | 59 ++++++++++---------
 1 file changed, 32 insertions(+), 27 deletions(-)

diff --git a/pkgs/development/python-modules/dask-glm/default.nix b/pkgs/development/python-modules/dask-glm/default.nix
index 7fbb0359e2ca..97cfa6100313 100644
--- a/pkgs/development/python-modules/dask-glm/default.nix
+++ b/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
@@ -38,31 +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 = [ ];
-    maintainers = with maintainers; [ GaetanLepage ];
+    changelog = "https://github.com/dask/dask-glm/releases/tag/${version}";
+    license = lib.licenses.bsd3;
+    maintainers = with lib.maintainers; [ GaetanLepage ];
   };
 }

From 1d52622529ec21840a1684142bd320a0f8d7203e Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Fri, 7 Feb 2025 15:12:52 +0100
Subject: [PATCH 08/19] python312Packages.sparse: add GaetanLepage as
 maintainer

---
 pkgs/development/python-modules/sparse/default.nix | 1 +
 1 file changed, 1 insertion(+)

diff --git a/pkgs/development/python-modules/sparse/default.nix b/pkgs/development/python-modules/sparse/default.nix
index c09040d2beaa..215b826b477d 100644
--- a/pkgs/development/python-modules/sparse/default.nix
+++ b/pkgs/development/python-modules/sparse/default.nix
@@ -59,5 +59,6 @@ buildPythonPackage rec {
     downloadPage = "https://github.com/pydata/sparse/releases/tag/${version}";
     license = licenses.bsd3;
     maintainers = [ ];
+    maintainers = with maintainers; [ GaetanLepage ];
   };
 }

From f4fd33f95e10a48d18374114444e9b5467e1da47 Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Fri, 7 Feb 2025 15:13:02 +0100
Subject: [PATCH 09/19] python312Packages.sparse: cleanup & mark as broken on
 aarch64-linux

---
 .../python-modules/sparse/default.nix         | 53 ++++++++++---------
 1 file changed, 27 insertions(+), 26 deletions(-)

diff --git a/pkgs/development/python-modules/sparse/default.nix b/pkgs/development/python-modules/sparse/default.nix
index 215b826b477d..81e567f46ec4 100644
--- a/pkgs/development/python-modules/sparse/default.nix
+++ b/pkgs/development/python-modules/sparse/default.nix
@@ -1,15 +1,21 @@
 {
   lib,
   buildPythonPackage,
-  dask,
-  fetchPypi,
-  numba,
-  numpy,
-  pytest7CheckHook,
-  pythonOlder,
+  fetchFromGitHub,
+
+  # build-system
   setuptools,
   setuptools-scm,
+
+  # dependencies
+  numba,
+  numpy,
   scipy,
+
+  # tests
+  dask,
+  pytest-cov-stub,
+  pytestCheckHook,
 }:
 
 buildPythonPackage rec {
@@ -17,18 +23,13 @@ buildPythonPackage rec {
   version = "0.15.5";
   pyproject = true;
 
-  disabled = pythonOlder "3.8";
-
-  src = fetchPypi {
-    inherit pname version;
-    hash = "sha256-THbODJb1zVwxt+eeZQ8AIkJMKxbwXxAEnpxjge5L4mY=";
+  src = fetchFromGitHub {
+    owner = "pydata";
+    repo = "sparse";
+    tag = version;
+    hash = "sha256-W4rcq7G/bQsT9oTLieOzWNst5LnIAelRMbm+uUPeQgs=";
   };
 
-  postPatch = ''
-    substituteInPlace pytest.ini \
-      --replace-fail "--cov-report term-missing --cov-report html --cov-report=xml --cov-report=term --cov sparse --cov-config .coveragerc --junitxml=junit/test-results.xml" ""
-  '';
-
   build-system = [
     setuptools
     setuptools-scm
@@ -42,23 +43,23 @@ buildPythonPackage rec {
 
   nativeCheckInputs = [
     dask
-    pytest7CheckHook
+    pytest-cov-stub
+    pytestCheckHook
   ];
 
   pythonImportsCheck = [ "sparse" ];
 
-  pytestFlagsArray = [
-    "-W"
-    "ignore::pytest.PytestRemovedIn8Warning"
-  ];
-
-  meta = with lib; {
+  meta = {
     description = "Sparse n-dimensional arrays computations";
     homepage = "https://sparse.pydata.org/";
     changelog = "https://sparse.pydata.org/en/stable/changelog.html";
     downloadPage = "https://github.com/pydata/sparse/releases/tag/${version}";
-    license = licenses.bsd3;
-    maintainers = [ ];
-    maintainers = with maintainers; [ GaetanLepage ];
+    license = lib.licenses.bsd3;
+    maintainers = with lib.maintainers; [ GaetanLepage ];
+    badPlatforms = [
+      # Most tests fail with: Fatal Python error: Segmentation fault
+      # numba/typed/typedlist.py", line 344 in append
+      "aarch64-linux"
+    ];
   };
 }

From e6ea345642291962533b3fbccb27dd63ace175c9 Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Fri, 7 Feb 2025 16:27:40 +0100
Subject: [PATCH 10/19] python312Packages.devito: fix build

---
 .../python-modules/devito/default.nix         | 28 +++++++++++++------
 1 file changed, 19 insertions(+), 9 deletions(-)

diff --git a/pkgs/development/python-modules/devito/default.nix b/pkgs/development/python-modules/devito/default.nix
index 4c9ee562011f..a69ae736a22a 100644
--- a/pkgs/development/python-modules/devito/default.nix
+++ b/pkgs/development/python-modules/devito/default.nix
@@ -1,27 +1,32 @@
 {
   lib,
   stdenv,
-  anytree,
   buildPythonPackage,
+  fetchFromGitHub,
+
+  # build-system
   setuptools,
+
+  # dependencies
+  anytree,
   cached-property,
   cgen,
   click,
   codepy,
   distributed,
-  fetchFromGitHub,
-  gcc,
   llvmPackages,
-  matplotlib,
   multidict,
   nbval,
   psutil,
   py-cpuinfo,
-  pytest-xdist,
-  pytestCheckHook,
-  pythonOlder,
   scipy,
   sympy,
+
+  # tests
+  gcc,
+  matplotlib,
+  pytest-xdist,
+  pytestCheckHook,
 }:
 
 buildPythonPackage rec {
@@ -29,8 +34,6 @@ buildPythonPackage rec {
   version = "4.8.11";
   pyproject = true;
 
-  disabled = pythonOlder "3.8";
-
   src = fetchFromGitHub {
     owner = "devitocodes";
     repo = "devito";
@@ -42,6 +45,9 @@ buildPythonPackage rec {
   postPatch = ''
     substituteInPlace requirements-testing.txt \
       --replace-fail 'pooch; python_version >= "3.8"' "pooch"
+
+    substituteInPlace tests/test_builtins.py \
+      --replace-fail "from scipy.misc import ascent" "from scipy.datasets import ascent"
   '';
 
   pythonRemoveDeps = [ "pip" ];
@@ -99,6 +105,10 @@ buildPythonPackage rec {
       "test_stability_mpi"
       "test_subdomainset_mpi"
       "test_subdomains_mpi"
+
+      # Download dataset from the internet
+      "test_gs_2d_float"
+      "test_gs_2d_int"
     ]
     ++ lib.optionals (stdenv.hostPlatform.isLinux && stdenv.hostPlatform.isAarch64) [
       # FAILED tests/test_unexpansion.py::Test2Pass::test_v0 - assert False

From d506ad7f5c0fadd3994c2895ebb68ed4aba61856 Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Fri, 7 Feb 2025 17:59:30 +0100
Subject: [PATCH 11/19] python312Packages.catboost: mark as broken

---
 pkgs/development/python-modules/catboost/default.nix | 7 ++++++-
 1 file changed, 6 insertions(+), 1 deletion(-)

diff --git a/pkgs/development/python-modules/catboost/default.nix b/pkgs/development/python-modules/catboost/default.nix
index d0fc77b70038..86c1211aead0 100644
--- a/pkgs/development/python-modules/catboost/default.nix
+++ b/pkgs/development/python-modules/catboost/default.nix
@@ -22,8 +22,8 @@ buildPythonPackage rec {
     pname
     version
     src
-    meta
     ;
+
   pyproject = true;
 
   sourceRoot = "${src.name}/catboost/python-package";
@@ -55,4 +55,9 @@ buildPythonPackage rec {
   doCheck = false;
 
   pythonImportsCheck = [ "catboost" ];
+
+  meta = catboost.meta // {
+    # Incompatible with numpy >= 2.0
+    broken = true;
+  };
 }

From cdbaefe74329ed3587d686720e5de04919306292 Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Sat, 8 Feb 2025 11:49:04 +0100
Subject: [PATCH 12/19] python312Packages.dask-ml: 2024.4.4 -> 2025.1.0

Diff: https://github.com/dask/dask-ml/compare/refs/tags/v2024.4.4...v2025.1.0
---
 .../python-modules/dask-ml/default.nix        | 46 ++++---------------
 1 file changed, 9 insertions(+), 37 deletions(-)

diff --git a/pkgs/development/python-modules/dask-ml/default.nix b/pkgs/development/python-modules/dask-ml/default.nix
index e3949fde678b..f30adb7ff246 100644
--- a/pkgs/development/python-modules/dask-ml/default.nix
+++ b/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;

From 64249c9b7d2d80d7983a1efc382b3a53b6a9ae6b Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Sat, 8 Feb 2025 21:52:02 +0100
Subject: [PATCH 13/19] python312Packages.dask-histogram: 2024.12.1 -> 2025.2.0

Diff: https://github.com/dask-contrib/dask-histogram/compare/refs/tags/2024.12.1...2025.2.0

Changelog: https://github.com/dask-contrib/dask-histogram/releases/tag/2025.2.0
---
 .../development/python-modules/dask-histogram/default.nix | 8 +++++---
 1 file changed, 5 insertions(+), 3 deletions(-)

diff --git a/pkgs/development/python-modules/dask-histogram/default.nix b/pkgs/development/python-modules/dask-histogram/default.nix
index fc6af4c39c6b..98692269069d 100644
--- a/pkgs/development/python-modules/dask-histogram/default.nix
+++ b/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 ];
   };

From cb32a8ad1cba105da078243a973927f194e4f821 Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Sat, 8 Feb 2025 21:54:54 +0100
Subject: [PATCH 14/19] python312Packages.dask-awkward: 2024.12.2 -> 2025.2.0

Diff: https://github.com/dask-contrib/dask-awkward/compare/refs/tags/2024.12.2...2025.2.0

Changelog: https://github.com/dask-contrib/dask-awkward/releases/tag/2025.2.0
---
 .../python-modules/dask-awkward/default.nix          | 12 ++++++------
 1 file changed, 6 insertions(+), 6 deletions(-)

diff --git a/pkgs/development/python-modules/dask-awkward/default.nix b/pkgs/development/python-modules/dask-awkward/default.nix
index a0d8b63fe06a..8031a140ffbf 100644
--- a/pkgs/development/python-modules/dask-awkward/default.nix
+++ b/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 ];
   };

From 3af88eb4248b0a96e82a307ab0104e45a5d01d82 Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Sat, 8 Feb 2025 21:59:59 +0100
Subject: [PATCH 15/19] python312Packages.awkward-cpp: 43 -> 44

---
 pkgs/development/python-modules/awkward-cpp/default.nix | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/pkgs/development/python-modules/awkward-cpp/default.nix b/pkgs/development/python-modules/awkward-cpp/default.nix
index 0063cd3f851f..ce96b50ca49b 100644
--- a/pkgs/development/python-modules/awkward-cpp/default.nix
+++ b/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 = [

From 5de8457c08fdaf5ba12e2d1bab418c5c6c5f5114 Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Sat, 8 Feb 2025 21:58:04 +0100
Subject: [PATCH 16/19] python312Packages.awkward: 2.7.2 -> 2.7.4

Diff: https://github.com/scikit-hep/awkward/compare/refs/tags/v2.7.2...v2.7.4

Changelog: https://github.com/scikit-hep/awkward/releases/tag/v2.7.4
---
 .../python-modules/awkward/default.nix        | 51 +++++++++++--------
 1 file changed, 31 insertions(+), 20 deletions(-)

diff --git a/pkgs/development/python-modules/awkward/default.nix b/pkgs/development/python-modules/awkward/default.nix
index 8722a72cf635..6124a408e605 100644
--- a/pkgs/development/python-modules/awkward/default.nix
+++ b/pkgs/development/python-modules/awkward/default.nix
@@ -1,7 +1,7 @@
 {
   lib,
+  stdenv,
   buildPythonPackage,
-  pythonOlder,
   fetchFromGitHub,
 
   # build-system
@@ -13,29 +13,27 @@
   fsspec,
   numpy,
   packaging,
-  typing-extensions,
-  importlib-metadata,
 
-  # checks
+  # tests
   numba,
-  setuptools,
   numexpr,
   pandas,
   pyarrow,
   pytest-xdist,
   pytestCheckHook,
+  setuptools,
 }:
 
 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 +41,12 @@ 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;
 
@@ -60,19 +55,35 @@ buildPythonPackage rec {
   nativeCheckInputs = [
     fsspec
     numba
-    setuptools
     numexpr
     pandas
     pyarrow
     pytest-xdist
     pytestCheckHook
+    setuptools
   ];
 
-  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";

From 8d23cded07fe77e45db1ada00ff3a3bbda2b51ae Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Sat, 8 Feb 2025 22:08:22 +0100
Subject: [PATCH 17/19] python312Packages.mplhep: 0.3.55 -> 0.3.56

Diff: https://github.com/scikit-hep/mplhep/compare/refs/tags/v0.3.55...v0.3.56
---
 .../python-modules/mplhep/default.nix         | 31 ++++++++++++-------
 1 file changed, 19 insertions(+), 12 deletions(-)

diff --git a/pkgs/development/python-modules/mplhep/default.nix b/pkgs/development/python-modules/mplhep/default.nix
index 604eea8a8489..a5c167aa603f 100644
--- a/pkgs/development/python-modules/mplhep/default.nix
+++ b/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 ];
   };

From 5b73ca5a0c6930c157c36983ed4fd54bc90fd5f7 Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Sat, 8 Feb 2025 22:15:52 +0100
Subject: [PATCH 18/19] python312Packages.coffea: fix build

---
 pkgs/development/python-modules/coffea/default.nix | 8 ++++++++
 1 file changed, 8 insertions(+)

diff --git a/pkgs/development/python-modules/coffea/default.nix b/pkgs/development/python-modules/coffea/default.nix
index 5e61b17c5c2d..0710ca0f5dba 100644
--- a/pkgs/development/python-modules/coffea/default.nix
+++ b/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;

From ff787004396499583498584e78d705f1f820b592 Mon Sep 17 00:00:00 2001
From: Gaetan Lepage <gaetan@glepage.com>
Date: Sun, 9 Feb 2025 12:28:47 +0100
Subject: [PATCH 19/19] python312Packages.dask-image: fix build

---
 .../python-modules/dask-image/default.nix     | 27 ++++++++++++++++---
 1 file changed, 24 insertions(+), 3 deletions(-)

diff --git a/pkgs/development/python-modules/dask-image/default.nix b/pkgs/development/python-modules/dask-image/default.nix
index a297902bc684..599e99853ad8 100644
--- a/pkgs/development/python-modules/dask-image/default.nix
+++ b/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 ];
   };