Apply nanobind_bazel patch via git instead

.github/workflows/lint-and-test.yaml

@@ -17,7 +17,7 @@ jobs:
         with:
           fetch-depth: 0
       - name: Install uv
-        uses: astral-sh/setup-uv@v4
+        uses: astral-sh/setup-uv@v5
       - name: Run pre-commit checks
         run: uvx pre-commit run --all-files --verbose --show-diff-on-failure
   test:
@@ -31,7 +31,7 @@ jobs:
     steps:
       - uses: actions/checkout@v4
       - name: Install uv
-        uses: astral-sh/setup-uv@v4
+        uses: astral-sh/setup-uv@v5
         with:
           python-version: ${{ matrix.python-version }}
       - name: Check out nanobind example repo
@@ -40,12 +40,9 @@ jobs:
           repository: wjakob/nanobind_example
           path: nanobind_example
           ref: bazel
-      - name: Patch nanobind_example stubgen target
-        run: git apply ${{github.workspace }}/stubgen.patch
+      - name: Override nanobind_bazel dep with local checkout in MODULE.bazel
+        run: git apply ${{github.workspace }}/nanobind_bazel_local_override.patch
         working-directory: ${{ github.workspace }}/nanobind_example
-
-      - name: Override nanobind_bazel pin in MODULE.bazel
-        run: python fixup_module_bazel.py ${{ github.workspace}}/nanobind_example
       - name: Build and test nanobind_example on ${{ matrix.os }}
         # --no-sync is required so that uv does not remove the .so file again.
         run: |

nanobind_bazel_local_override.patch

@@ -0,0 +1,29 @@
+diff --git a/MODULE.bazel b/MODULE.bazel
+index 7723d4c..a15a36b 100644
+--- a/MODULE.bazel
++++ b/MODULE.bazel
+@@ -1,6 +1,10 @@
+ module(name = "nanobind_example", version = "0.1.0")
+
+-bazel_dep(name = "nanobind_bazel", version = "2.4.0")
++bazel_dep(name = "nanobind_bazel", version = "")
++local_path_override(
++    module_name = "nanobind_bazel",
++    path = "../",
++)
+ bazel_dep(name = "rules_python", version = "1.0.0")
+
+ python = use_extension("@rules_python//python/extensions:python.bzl", "python")
+diff --git a/src/BUILD b/src/BUILD
+index 5562dca..95e210e 100644
+--- a/src/BUILD
++++ b/src/BUILD
+@@ -20,6 +20,6 @@ nanobind_stubgen(
+     name = "nanobind_example_ext_stubgen",
+     module = ":nanobind_example_ext",
+     marker_file = "src/py.typed",
+-    output_directory = "src",
+-    recursive = True,
++#    output_directory = "src",
++#    recursive = True,
+ )