python312Packages.pgmpy: 0.1.25 -> 0.1.26 (#342500)

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

@@ -2,9 +2,8 @@
   lib,
   buildPythonPackage,
   fetchFromGitHub,
-  pythonAtLeast,
-  pythonOlder,
-  # build inputs
+
+  # dependencies
   networkx,
   numpy,
   scipy,
@@ -16,42 +15,29 @@
   tqdm,
   joblib,
   opt-einsum,
-  # check inputs
+  xgboost,
+  google-generativeai,
+
+  # tests
   pytestCheckHook,
   pytest-cov,
   coverage,
   mock,
   black,
 }:
-let
+buildPythonPackage rec {
   pname = "pgmpy";
-  version = "0.1.25";
-in
-# optional-dependencies = {
-#   all = [ daft ];
-# };
-buildPythonPackage {
-  inherit pname version;
-  format = "setuptools";
-
-  disabled = pythonOlder "3.7";
+  version = "0.1.26";
+  pyproject = true;
 
   src = fetchFromGitHub {
     owner = "pgmpy";
-    repo = pname;
+    repo = "pgmpy";
     rev = "refs/tags/v${version}";
-    hash = "sha256-d2TNcJQ82XxTWdetLgtKXRpFulAEEzrr+cyRewoA6YI=";
+    hash = "sha256-RusVREhEXYaJuQXTaCQ7EJgbo4+wLB3wXXCAc3sBGtU=";
   };
 
-  # TODO: Remove this patch after updating to pgmpy 0.1.26.
-  # The PR https://github.com/pgmpy/pgmpy/pull/1745 will have been merged.
-  # It contains the fix below, among other things, which is why we do not use fetchpatch.
-  postPatch = lib.optionalString (pythonAtLeast "3.12") ''
-    substituteInPlace pgmpy/tests/test_estimators/test_MarginalEstimator.py \
-      --replace-fail 'self.assert_' 'self.assertTrue'
-  '';
-
-  propagatedBuildInputs = [
+  dependencies = [
     networkx
     numpy
     scipy
@@ -63,10 +49,21 @@ buildPythonPackage {
     tqdm
     joblib
     opt-einsum
+    xgboost
+    google-generativeai
   ];
 
   disabledTests = [
-    "test_to_daft" # requires optional dependency daft
+    # flaky:
+    # AssertionError: -45.78899127622197 != -45.788991276221964
+    "test_score"
+
+    # self.assertTrue(np.isclose(coef, dep_coefs[i], atol=1e-4))
+    # AssertionError: False is not true
+    "test_pillai"
+
+    # requires optional dependency daft
+    "test_to_daft"
   ];
 
   nativeCheckInputs = [
@@ -78,11 +75,11 @@ buildPythonPackage {
     black
   ];
 
-  meta = with lib; {
+  meta = {
     description = "Python Library for learning (Structure and Parameter), inference (Probabilistic and Causal), and simulations in Bayesian Networks";
     homepage = "https://github.com/pgmpy/pgmpy";
     changelog = "https://github.com/pgmpy/pgmpy/releases/tag/v${version}";
-    license = licenses.mit;
-    maintainers = with maintainers; [ happysalada ];
+    license = lib.licenses.mit;
+    maintainers = with lib.maintainers; [ happysalada ];
   };
 }