[python] Expand unit-testing for enumerated types

apis/python/devtools/outgestor

@@ -62,7 +62,7 @@ def main():
         "--var-id-name",
         help="Which var column name to use as index for outgested andata",
         type=str,
-        default="obs_id",
+        default="var_id",
     )
     parser.add_argument(
         "paths",

apis/python/tests/test_basic_anndata_io.py

@@ -1,3 +1,4 @@
+import math
 import pathlib
 import tempfile
 from pathlib import Path
@@ -476,3 +477,18 @@ def test_null_obs(adata, tmp_path: Path):
         #   of the Pandas data frame
         for k in adata.obs:
             assert obs.attr(k).isnullable == adata.obs[k].isnull().any()
+
+
+# There exist in the wild AnnData files with categorical-int columns where the "not in the category"
+# is indicated by the presence of floating-point math.NaN in cells. Here we test that we can ingest
+# this.
+def test_obs_with_categorical_int_nan_enumeration(tmp_path, adata):
+    output_path = tmp_path.as_uri()
+
+    # Currently getting float not int here, failing to repro the problem
+    s = pd.Series(list(range(len(adata.obs))))
+    s[0] = math.nan
+    adata.obs["categ_int_nan"] = s
+
+    output_path = tmp_path.as_posix()
+    tiledbsoma.io.from_anndata(output_path, adata, measurement_name="RNA")