Remove interstitial products

src/kg_bioportal/transformer.py

@@ -10,8 +10,7 @@
 from kgx.transformer import Transformer as KGXTransformer
 
 from kg_bioportal.downloader import ONTOLOGY_LIST_NAME
-from kg_bioportal.robot_utils import (initialize_robot, robot_convert,
-                                      robot_relax)
+from kg_bioportal.robot_utils import initialize_robot, robot_convert, robot_relax
 
 # TODO: Don't repeat steps if the products already exist
 # TODO: Fix KGX hijacking logging
@@ -248,10 +247,21 @@ def transform(self, ontology_path: str, compress: bool) -> Tuple[bool, int, int]
                 with tarfile.open(f"{outfilename}.tar.gz", "w:gz") as tar:
                     tar.add(nodefilename, arcname=f"{ontology_name}_nodes.tsv")
                     tar.add(edgefilename, arcname=f"{ontology_name}_edges.tsv")
-                
+
                 os.remove(nodefilename)
                 os.remove(edgefilename)
 
+            # Remove the owl files
+            # They may not exist if the transform failed
+            try:
+                os.remove(owl_output_path)
+            except OSError:
+                pass
+            try:
+                os.remove(relaxed_outpath)
+            except OSError:
+                pass
+
         except Exception as e:
             logging.error(
                 f"Error transforming {ontology_name} to KGX nodes and edges: {e}"