Hotfix allow heuristic determination of marking mechanism.

nadeemlab · Sep 22, 2023 · 907a9ec · 907a9ec
1 parent ef97a8e
commit 907a9ec
Showing 1 changed file with 7 additions and 2 deletions.
diff --git a/spatialprofilingtoolbox/workflow/tabular_import/parsing/channels.py b/spatialprofilingtoolbox/workflow/tabular_import/parsing/channels.py
@@ -222,7 +222,12 @@ def _infer_common_marking_mechanism(channels: DataFrame) -> str:
         if len(mechanisms) == 1:
             mechanism = mechanisms[0]
         else:
-            mechanism = ''
-            logger.warning('Failed to infer marking mechanism.')
+            mechanism = ChannelsPhenotypesParser._get_most_common_marking_mechanism(channels)
         logger.info('Inferred marking mechanism: %s', mechanism)
         return mechanism
+
+    @classmethod
+    def _get_most_common_marking_mechanism(cls, channels: DataFrame) -> str:
+        frequencies = list(channels.value_counts('Marking mechanism').items())
+        frequencies = sorted(frequencies, key=lambda row: row[1], reverse=True)
+        return str(frequencies[0][0])