Merge pull request #486 from NeurodataWithoutBorders/inspector-quick-fix

Fallback to n_jobs=1 if NWB Inspector fails

pyflask/manageNeuroconv/manage_neuroconv.py

@@ -592,19 +592,29 @@ def inspect_nwb_file(payload):
 def inspect_nwb_folder(payload):
     from nwbinspector import inspect_all, load_config
     from nwbinspector.nwbinspector import InspectorOutputJSONEncoder
-
-    messages = list(
-        inspect_all(
-            n_jobs=-2,  # uses number of CPU - 1
-            ignore=[
-                "check_description",
-                "check_data_orientation",
-            ],  # TODO: remove when metadata control is exposed
-            config=load_config(filepath_or_keyword="dandi"),
-            **payload,
-        )
+    from pickle import PicklingError
+
+    kwargs = dict(
+        n_jobs=-2,  # uses number of CPU - 1
+        ignore=[
+            "check_description",
+            "check_data_orientation",
+        ],  # TODO: remove when metadata control is exposed
+        config=load_config(filepath_or_keyword="dandi"),
+        **payload,
     )
 
+    try:
+        messages = list(inspect_all(**kwargs))
+    except PicklingError as e:
+        if "attribute lookup auto_parse_some_output on nwbinspector.register_checks failed" in str(e):
+            del kwargs["n_jobs"]
+            messages = list(inspect_all(**kwargs))
+        else:
+            raise e
+    except Exception as e:
+        raise e
+
     return json.loads(json.dumps(obj=messages, cls=InspectorOutputJSONEncoder))