add initial tests for bids-validation

snakebids/tests/test_app.py

@@ -100,6 +100,7 @@ def test_runs_in_correct_mode(
                 "pybids_db_reset": True,
                 "snakefile": Path("Snakefile"),
                 "output_dir": outputdir.resolve(),
+                "skip_bids_validation": False
             }
         )
         if root == "app" and tail == "":

snakebids/tests/test_generate_inputs.py

@@ -15,6 +15,7 @@
 import more_itertools as itx
 import pytest
 from bids import BIDSLayout
+from bids.exceptions import BIDSValidationError
 from hypothesis import HealthCheck, assume, example, given, settings
 from hypothesis import strategies as st
 from pyfakefs.fake_filesystem import FakeFilesystem
@@ -998,6 +999,33 @@ def test_when_all_custom_paths_no_layout_indexed(
     spy.assert_not_called()
 
 
+class TestValidate:
+    @pytest.fixture(autouse=True)
+    def start(self, tmpdir):
+        self.bids_dir = "snakebids/tests/data/bids_t1w"
+        self.tmp_dir = tmpdir.strpath
+
+        # Copy test data
+        shutil.copytree(self.bids_dir, f"{self.tmp_dir}/data")
+
+
+    def test_check_validator(self):
+        """Test validator defaults to pybids"""
+        assert _validate_input_dir(self.bids_dir) == False 
+
+
+    # Test for validation failure
+    def test_pybids_validation_fail(self):
+        with pytest.raises(BIDSValidationError):
+            _gen_bids_layout(
+                bids_dir=f"{self.tmp_dir}/data",
+                derivatives=False,
+                pybids_database_dir=None,
+                pybids_reset_database=False,
+                validate=True,
+            )
+
+
 class TestDB:
     @pytest.fixture(autouse=True)
     def start(self, tmpdir):