[python] Allow obs_query=None/var_query=None in `ExperimentAxisQu…

…ery` (#2476) (#2478)

Co-authored-by: John Kerl <[email protected]>

.pre-commit-config.yaml

@@ -15,7 +15,7 @@ repos:
     - id: mypy
       additional_dependencies:
         - "pandas-stubs==1.5.3.230214"
-        - "somacore==1.0.10"
+        - "somacore==1.0.11"
         - "types-setuptools==67.4.0.3"
       args: ["--config-file=apis/python/pyproject.toml", "apis/python/src", "apis/python/devtools"]
       pass_filenames: false

apis/python/setup.py

@@ -329,7 +329,8 @@ def run(self):
         "pyarrow>=9.0.0; platform_system!='Darwin'",
         "scanpy>=1.9.2",
         "scipy",
-        "somacore==1.0.10",
+        # Note: the somacore version is in .pre-commit-config.yaml too
+        "somacore==1.0.11",
         "tiledb~=0.28.0",
         "typing-extensions",  # Note "-" even though `import typing_extensions`
     ],

apis/python/tests/test_experiment_query.py

@@ -388,6 +388,21 @@ def test_experiment_query_none(soma_experiment):
         assert len(query.X("raw").tables().concat()) == 0
 
 
+@pytest.mark.parametrize("n_obs,n_vars", [(1001, 99)])
+def test_experiment_axis_query_with_none(soma_experiment):
+    """Test query by value filter"""
+    obs_label_values = ["3", "7", "38", "99"]
+
+    with soma.ExperimentAxisQuery(
+        experiment=soma_experiment,
+        measurement_name="RNA",
+        obs_query=soma.AxisQuery(value_filter=f"label in {obs_label_values}"),
+        var_query=None,
+    ) as query:
+        assert query.n_obs == len(obs_label_values)
+        assert query.obs().concat()["label"].to_pylist() == obs_label_values
+
+
 @pytest.mark.parametrize("n_obs,n_vars,X_layer_names", [(1001, 99, ["A"])])
 def test_joinid_caching(soma_experiment):
     """