Merge pull request #94 from effigies/test

TEST: Add some basic tests, run CI

Author: effigies

.env

@@ -0,0 +1 @@
+JUPYTER_PLATFORM_DIRS=1

.github/workflows/package.yml

@@ -40,12 +40,74 @@ jobs:
         with:
           path: bsmschema
           attest-build-provenance-github: ${{ github.event_name != 'pull_request' }}
+      - name: Upload uv.lock
+        uses: actions/upload-artifact@v4
+        with:
+          name: Lockfile
+          path: |
+            uv.lock
+            pyproject.toml
+
+  test:
+    runs-on: ${{ matrix.os }}
+    needs: [build]
+    strategy:
+      matrix:
+        os: ['ubuntu-latest']
+        source: ['repo', 'sdist']
+      fail-fast: false
+
+    env:
+      DEPENDS: ${{ matrix.dependencies }}
+
+    steps:
+      - uses: actions/checkout@v4
+        if: matrix.source == 'repo'
+        with:
+          submodules: recursive
+          fetch-depth: 0
+      - name: Download packages built by build-and-inspect-python-package
+        if: matrix.source == 'sdist'
+        uses: actions/download-artifact@v4
+        with:
+          name: Packages
+          path: dist
+      - name: Download lockfile
+        if: matrix.source == 'sdist'
+        uses: actions/download-artifact@v4
+        with:
+          name: Lockfile
+      - name: Extract sdist
+        if: matrix.source == 'sdist'
+        run: |
+          ls -lR
+          mkdir -p bsmschema
+          tar --strip-components=1 -C bsmschema -xzf dist/*.tar.gz
+          ls -lR
+      - name: Set up uv
+        uses: astral-sh/setup-uv@v6
+      - name: Install tox and coverage
+        run: |
+          uv tool install tox --with=tox-uv
+          uv tool install coverage[toml]
+      - name: Run tox
+        run: tox run-parallel -c bsmschema/tox.ini --exit-and-dump-after 60
+      - name: Combine coverage
+        run: |
+          coverage combine
+          coverage xml
+        working-directory: bsmschema
+      - name: Upload coverage reports to Codecov
+        uses: codecov/codecov-action@v5
+        with:
+          token: ${{ secrets.CODECOV_TOKEN }}
+          working-directory: bsmschema
 
   publish:
     name: Publish package to PyPI
     if: github.event_name == 'push' && startsWith(github.ref, 'refs/tags')
     runs-on: ubuntu-latest
-    needs: [build]
+    needs: [build, test]
     permissions:
       attestations: write
       id-token: write

.gitignore

@@ -1,2 +1,4 @@
 .*.swp
 .vscode
+
+dist/

bsmschema/.gitignore

@@ -10,3 +10,8 @@ build/
 
 .mypy_cache/
 .pytest_cache/
+
+.tox/
+
+.coverage
+htmlcov

bsmschema/bsmschema/models.py

@@ -33,7 +33,7 @@
 
 # Hack to avoid unnecessary verbosity when generating documentation
 # Has no impact on emitted JSON, only on whether Python will attempt to cast instead of error
-if not TYPE_CHECKING and 'sphinxcontrib.autodoc_pydantic' in sys.modules:
+if not TYPE_CHECKING and 'sphinxcontrib.autodoc_pydantic' in sys.modules:  # pragma: no cover
     StrictStr = str  # noqa: F811
     StrictInt = int  # noqa: F811
     StrictFloat = float  # noqa: F811
@@ -126,7 +126,6 @@ class Edge(_BSMBase):
     Destination: StrictStr
     """Name of :py:class:`Node`. The outputs of :py:attr:`Source` are passed to this node.
 
-    If :py:attr:`Filter` is defined,
     The outputs of the Source node are the inputs of the Destination node, after filtering (if any)."""
     Filter: OptionalFilter = None
     """Maps a grouping variable to a list of values to pass to Destination.

bsmschema/pyproject.toml

@@ -16,11 +16,12 @@ dependencies = [
 ]
 classifiers = [
     "Programming Language :: Python :: 3",
-    "Programming Language :: Python :: 3.8",
     "Programming Language :: Python :: 3.9",
     "Programming Language :: Python :: 3.10",
     "Programming Language :: Python :: 3.11",
-    "Development Status :: 3 - Alpha",
+    "Programming Language :: Python :: 3.12",
+    "Programming Language :: Python :: 3.13",
+    "Development Status :: 4 - Beta",
     "License :: OSI Approved :: Apache Software License",
 ]
 dynamic = ["version"]
@@ -29,6 +30,18 @@ dynamic = ["version"]
 Homepage = "https://bids-standard.github.io/stats-models/"
 "Source code" = "https://github.com/bids-standard/stats-models"
 
+[dependency-groups]
+test = [
+  "pytest >=8",
+  "acres >=0.2",
+  "coverage[toml] >=7",
+  "pytest-cov >=6",
+]
+types = [
+  "mypy",
+  "pyright",
+]
+
 [tool.hatch.build.targets.wheel]
 packages = ["bsmschema"]
 
@@ -47,3 +60,7 @@ quote-style = "single"
 
 [tool.mypy]
 strict = true
+
+[tool.coverage.run]
+parallel = true
+branch = true

bsmschema/tests/__init__.py

@@ -0,0 +1,3 @@
+import acres
+
+load = acres.Loader(__spec__.name)

bsmschema/tests/data/__init__.py

@@ -0,0 +1 @@
+../../../specification/examples

bsmschema/tests/data/examples

@@ -0,0 +1,12 @@
+from bsmschema.models import BIDSStatsModel
+
+from . import data
+
+
+def test_load():
+    example = data.load.readable('examples', 'model-example_smdl.json')
+    model = BIDSStatsModel.model_validate_json(example.read_text())
+
+    assert model.Name == 'my_first_model'
+    assert len(model.Nodes) == 3
+    assert len(model.Edges) == 2