Merge pull request #372 from ChristopherBradley/367

to_rich_dict works on annotated annotations

src/cogent3/core/annotation.py

@@ -257,6 +257,14 @@ def to_rich_dict(self):
         data = dict(annotation_construction=data)
         data["type"] = get_object_provenance(self)
         data["version"] = __version__
+
+        try:
+            annotations = [a.to_rich_dict() for a in self.annotations]
+            if annotations:
+                data["annotations"] = annotations
+        except AttributeError:
+            pass
+
         return data
 
     def to_json(self):

tests/test_core/test_features.py

@@ -26,6 +26,7 @@ def setUp(self):
         )
         self.exon1 = self.s.add_annotation(Feature, "exon", "fred", [(10, 15)])
         self.exon2 = self.s.add_annotation(Feature, "exon", "trev", [(30, 40)])
+        self.nested_feature = self.exon1.add_feature("repeat", "bob", [(2, 5)])
 
     def test_exon_extraction(self):
         """exon feature used to slice or directly access sequence"""
@@ -626,8 +627,14 @@ def test_roundtrip_variable(self):
 
     def test_nested_get_slice(self):
         """check the get_slice method works on nested annotations"""
-        nested_feature = self.exon1.add_feature("repeat", "C", [(2, 5)])
-        self.assertEqual(nested_feature.get_slice(), "CCC")
+        self.assertEqual(self.nested_feature.get_slice(), "CCC")
+
+    def test_nested_to_rich_dict(self):
+        """check the to_rich_dict method works with nested annotations"""
+        self.assertEqual(
+            self.exon1.to_rich_dict()["annotations"][0],
+            self.nested_feature.to_rich_dict(),
+        )
 
 
 if __name__ == "__main__":