[staging-next] fix python modules

pkgs/development/python-modules/ansible-runner/default.nix

@@ -8,8 +8,8 @@
   importlib-metadata,
   mock,
   openssh,
+  packaging,
   pexpect,
-  psutil,
   pytest-mock,
   pytest-timeout,
   pytest-xdist,
@@ -19,33 +19,35 @@
   pyyaml,
   setuptools,
   setuptools-scm,
-  six,
 }:
 
 buildPythonPackage rec {
   pname = "ansible-runner";
   version = "2.4.0";
   pyproject = true;
 
-  disabled = pythonOlder "3.8";
+  disabled = pythonOlder "3.9";
 
   src = fetchPypi {
     inherit pname version;
     hash = "sha256-gtArJUiDDzelNRe2XII8SvNxBpQGx9ITtckEHUXgxbY=";
   };
 
+  postPatch = ''
+    substituteInPlace pyproject.toml \
+      --replace '"setuptools>=45, <=69.0.2", "setuptools-scm[toml]>=6.2, <=8.0.4"' '"setuptools", "setuptools-scm"'
+  '';
+
   build-system = [
     setuptools
     setuptools-scm
   ];
 
   dependencies = [
-    ansible-core
-    psutil
+    packaging
     pexpect
     python-daemon
     pyyaml
-    six
   ] ++ lib.optionals (pythonOlder "3.10") [ importlib-metadata ];
 
   nativeCheckInputs = [

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

@@ -9,6 +9,7 @@
   hatch-fancy-pypi-readme,
   hatchling,
   httpx,
+  jiter,
   pydantic,
   pytest-asyncio,
   pytestCheckHook,
@@ -42,6 +43,7 @@ buildPythonPackage rec {
     anyio
     distro
     httpx
+    jiter
     sniffio
     pydantic
     tokenizers

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

@@ -36,22 +36,18 @@ buildPythonPackage rec {
     hash = "sha256-zAjGVICrYgai6GFpcJyigKxn7kNEZKclggR5ktzrCQ0=";
   };
 
-  pythonRelaxDeps = [ "clarifai-grpc" ];
-
-  pythonRemoveDeps = [ "opencv-python" ];
+  pythonRelaxDeps = [
+    "clarifai-grpc"
+    "schema"
+  ];
 
   build-system = [ setuptools ];
 
-
   dependencies = [
     clarifai-grpc
     inquirerpy
-    llama-index-core
     numpy
-    opencv4
-    pandas
     pillow
-    pypdf
     pyyaml
     rich
     schema
@@ -73,6 +69,8 @@ buildPythonPackage rec {
   disabledTests = [
     # Test requires network access and API key
     "test_export_workflow_general"
+    "test_validate_invalid_id"
+    "test_validate_invalid_hex_id"
   ];
 
   disabledTestPaths = [

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

@@ -0,0 +1,52 @@
+{
+  lib,
+  buildPythonPackage,
+  fetchFromGitHub,
+  hatchling,
+  agate,
+  dbt-common,
+  mashumaro,
+  protobuf,
+  pytz,
+  typing-extensions,
+  pytestCheckHook,
+}:
+
+buildPythonPackage rec {
+  pname = "dbt-adapters";
+  version = "1.3.2";
+  pyproject = true;
+
+  src = fetchFromGitHub {
+    owner = "dbt-labs";
+    repo = "dbt-adapters";
+    rev = "refs/tags/v${version}";
+    hash = "sha256-Erx/j1x+I4ypPqBFzJRZk3ILr3ZG97Hvk4vXe2p6cDc=";
+  };
+
+  build-system = [ hatchling ];
+
+  dependencies = [
+    agate
+    dbt-common
+    mashumaro
+    protobuf
+    pytz
+    typing-extensions
+  ] ++ mashumaro.optional-dependencies.msgpack;
+
+  pythonImportsCheck = [ "dbt.adapters" ];
+
+  # circular dependencies
+  doCheck = false;
+
+  nativeCheckInputs = [ pytestCheckHook ];
+
+  meta = {
+    description = "The set of adapter protocols and base functionality that supports integration with dbt-core";
+    homepage = "https://github.com/dbt-labs/dbt-adapters";
+    changelog = "https://github.com/dbt-labs/dbt-adapters/blob/${src.rev}/CHANGELOG.md";
+    license = lib.licenses.asl20;
+    maintainers = with lib.maintainers; [ ];
+  };
+}

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

@@ -0,0 +1,65 @@
+{
+  lib,
+  buildPythonPackage,
+  fetchFromGitHub,
+  hatchling,
+  agate,
+  colorama,
+  isodate,
+  jinja2,
+  jsonschema,
+  mashumaro,
+  pathspec,
+  protobuf,
+  python-dateutil,
+  requests,
+  typing-extensions,
+  pytest-mock,
+  pytest-xdist,
+  pytestCheckHook,
+}:
+
+buildPythonPackage rec {
+  pname = "dbt-common";
+  version = "1.3.0";
+  pyproject = true;
+
+  src = fetchFromGitHub {
+    owner = "dbt-labs";
+    repo = "dbt-common";
+    rev = "refs/tags/v${version}";
+    hash = "sha256-3UjwQy257ks21fQV0uZNKu5EsuzjlIAEcVtRWkR9x/4=";
+  };
+
+  build-system = [ hatchling ];
+
+  dependencies = [
+    agate
+    colorama
+    isodate
+    jinja2
+    jsonschema
+    mashumaro
+    pathspec
+    protobuf
+    python-dateutil
+    requests
+    typing-extensions
+  ] ++ mashumaro.optional-dependencies.msgpack;
+
+  pythonImportsCheck = [ "dbt_common" ];
+
+  nativeCheckInputs = [
+    pytest-mock
+    pytest-xdist
+    pytestCheckHook
+  ];
+
+  meta = {
+    description = "Shared common utilities for dbt-core and adapter implementations use";
+    homepage = "https://github.com/dbt-labs/dbt-common";
+    changelog = "https://github.com/dbt-labs/dbt-common/blob/${src.rev}/CHANGELOG.md";
+    license = lib.licenses.asl20;
+    maintainers = with lib.maintainers; [ ];
+  };
+}

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

@@ -2,15 +2,13 @@
   lib,
   agate,
   buildPythonPackage,
-  cffi,
   click,
-  colorama,
+  daff,
+  dbt-adapters,
+  dbt-common,
   dbt-extractor,
   dbt-semantic-interfaces,
   fetchFromGitHub,
-  hologram,
-  idna,
-  isodate,
   jinja2,
   logbook,
   mashumaro,
@@ -27,8 +25,6 @@
   setuptools,
   sqlparse,
   typing-extensions,
-  urllib3,
-  werkzeug,
 }:
 
 buildPythonPackage rec {
@@ -50,6 +46,7 @@ buildPythonPackage rec {
   pythonRelaxDeps = [
     "agate"
     "click"
+    "dbt-semantic-interfaces"
     "mashumaro"
     "networkx"
     "logbook"
@@ -63,14 +60,12 @@ buildPythonPackage rec {
 
   dependencies = [
     agate
-    cffi
     click
-    colorama
+    daff
+    dbt-adapters
+    dbt-common
     dbt-extractor
     dbt-semantic-interfaces
-    hologram
-    idna
-    isodate
     jinja2
     logbook
     mashumaro
@@ -84,8 +79,6 @@ buildPythonPackage rec {
     requests
     sqlparse
     typing-extensions
-    urllib3
-    werkzeug
   ] ++ mashumaro.optional-dependencies.msgpack;
 
   # tests exist for the dbt tool but not for this package specifically

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

@@ -2,28 +2,39 @@
   lib,
   agate,
   buildPythonPackage,
+  fetchFromGitHub,
+  dbt-adapters,
+  dbt-common,
   dbt-core,
+  hatchling,
   psycopg2,
   pythonOlder,
-  setuptools,
 }:
 
-buildPythonPackage {
+buildPythonPackage rec {
   pname = "dbt-postgres";
+  version = "1.8.2";
   pyproject = true;
 
-  inherit (dbt-core) version src;
+  disabled = pythonOlder "3.8";
 
-  disabled = pythonOlder "3.7";
-
-  sourceRoot = "${dbt-core.src.name}/plugins/postgres";
+  src = fetchFromGitHub {
+    owner = "dbt-labs";
+    repo = "dbt-postgres";
+    rev = "refs/tags/v${version}";
+    hash = "sha256-E7Y2lY8aCiAZx5sLWwpOBLTrdOsCQAdWWJTvR2jGOaA=";
+  };
 
   env.DBT_PSYCOPG2_NAME = "psycopg2";
 
-  build-system = [ setuptools ];
+  build-system = [ hatchling ];
+
+  pythonRemoveDeps = [ "psycopg2-binary" ];
 
   dependencies = [
     agate
+    dbt-adapters
+    dbt-common
     dbt-core
     psycopg2
   ];

pkgs/development/python-modules/duckdb-engine/default.nix

@@ -9,6 +9,7 @@
   pandas,
   poetry-core,
   pytest-remotedata,
+  snapshottest,
   sqlalchemy,
   typing-extensions,
 }:
@@ -44,6 +45,7 @@ buildPythonPackage rec {
     hypothesis
     pandas
     pytest-remotedata
+    snapshottest
     typing-extensions
   ];
 

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

@@ -2,6 +2,7 @@
   lib,
   buildPythonPackage,
   fetchFromGitHub,
+  fetchpatch,
   linear-operator,
   scikit-learn,
   setuptools,
@@ -23,6 +24,16 @@ buildPythonPackage rec {
     hash = "sha256-cpkfjx5G/4duL1Rr4nkHTHi03TDcYbcx3bKP2Ny7Ijo=";
   };
 
+  patches = [
+    (fetchpatch {
+      # https://github.com/cornellius-gp/gpytorch/pull/2545
+      name = "scipy-1.14-compatibility.patch";
+      url = "https://github.com/cornellius-gp/gpytorch/commit/2562be472521b8aec366de2619e3130a96fab982.patch";
+      excludes = [ "setup.py" ];
+      hash = "sha256-znOFpN6go2iIxP24VjJLKF3Laxcr4xV/IyP2y36g4QY=";
+    })
+  ];
+
   nativeBuildInputs = [
     setuptools
     setuptools-scm