fix unit tests

Author: johnkerl

apis/python/src/tiledbsoma/soma_dataframe.py

@@ -271,7 +271,7 @@ def write(self, values: pa.Table) -> None:
             if name != ROWID:
                 attr_cols_map[name] = np.asarray(
                     values.column(name).to_pandas(
-                        types_mapper=util_arrow.tiledb_type_from_arrow_type,
+                        types_mapper=util_arrow.tiledb_type_from_arrow_type_for_write,
                     )
                 )
 

apis/python/src/tiledbsoma/util_arrow.py

@@ -43,6 +43,20 @@
 }
 
 
+def tiledb_type_from_arrow_type_for_write(t: pa.DataType) -> Union[type, np.dtype, str]:
+    """
+    Same as ``tiledb_type_from_arrow_type`` except that this is used for writing to a TileDB array.
+    The syntax of TileDB-Py is such that when we want to create a schema with an ASCII column,
+    we use the string ``"ascii"`` in place of a dtype. But when we want to write data, we need to
+    use a dtype of ``np.str``, which is now deprecated in favor of simply ``str``.
+    """
+    retval = tiledb_type_from_arrow_type(t)
+    if retval == "ascii":
+        return str
+    else:
+        return retval
+
+
 def tiledb_type_from_arrow_type(t: pa.DataType) -> Union[type, np.dtype, str]:
     """
     Given an Arrow type, return the corresponding TileDB type as a Numpy dtype.

apis/python/tools/peek-exp.py

@@ -38,7 +38,7 @@ def count_obs(exp: tiledbsoma.SOMAExperiment, attr_name: str) -> None:
     sys.exit(1)
 
 cfg = tiledb.Config()
-cfg["py.init_buffer_bytes"] = 4 * 1024**3
+cfg["py.init_buffer_bytes"] = 4 * 1024 ** 3
 ctx = tiledb.Ctx(cfg)
 
 exp = tiledbsoma.SOMAExperiment(input_path, ctx=ctx)

libtiledbsoma/test/test_query_condition.py

@@ -90,7 +90,7 @@ def test_query_condition_and():
 
 def test_query_condition_and_or():
     uri = os.path.join(SOMA_URI, "obs")
-    condition = "(percent_mito > 0.02 and n_genes > 700) or (percent_mito < 0.015 and louvain == 'B cells')"
+    condition = '(percent_mito > 0.02 and n_genes > 700) or (percent_mito < 0.015 and louvain == "B cells")'
 
     pandas = pandas_query(uri, condition)