Update app.py

app.py

@@ -2111,6 +2111,32 @@ def process_row4Linking(row, text_splitter, args, key_geonames, cache_map_geonam
                             row['word'], text_splitter, args, key_virtuoso, cache_map_virtuoso, load_map_query_input_output,
                             id=iiid, iALLURIScontextFromNCBO=iiiALLURIScontextFromNCBO, UseBioportalForLinking=False,questionText=row[args.source_column])
 
+                else:
+                    # this case is only considered if it is not IsBio or IsGeo or RagMode, etcc..but there is already an annoptation for the NEL coming from NCBO
+                    if '@id' in row:
+                        # Check if the value is not None or NaN
+                        if row['@id'] is not None and not pd.isna(row['@id']):
+                            # Assign the value to the variable iiid
+                            iiid = row['@id']
+
+                            iiiALLURIScontextFromNCBO = None
+                            if 'ALLURIScontextFromNCBO' in row:
+                                if row['ALLURIScontextFromNCBO'] is not None and isinstance(
+                                        row['ALLURIScontextFromNCBO'],
+                                        list):  # and not pd.isna(row['ALLURIScontextFromNCBO']):
+                                    iiiALLURIScontextFromNCBO = row['ALLURIScontextFromNCBO']
+                                    iiiALLURIScontextFromNCBO = list(set(iiiALLURIScontextFromNCBO))
+
+                            if strtobool(args.debug):
+                                print(f"\n----- It is not IsBio or IsGeo, but it has id from NCBO ...forcing COMPUTING ... {row['word']} IN THE TEXT:")
+                                print(row[args.source_column])
+
+                            result, ALLURIScontext, singleContext, globalContext, singleTriples, globalTriples, cache_map_virtuoso, load_map_query_input_output = virtuoso_api_call(
+                                row['word'], text_splitter, args, key_virtuoso, cache_map_virtuoso,
+                                load_map_query_input_output,
+                                id=iiid, iALLURIScontextFromNCBO=iiiALLURIScontextFromNCBO, UseBioportalForLinking=True,
+                                questionText=row[args.source_column])
+
         else:
             if (row['IsBio'] == 1) or ( (pd.isnull(row["IsBio"]) or row["IsBio"] == '' or row['IsBio'] == 0 or row["IsBio"] is None) and (row['entity_group'] == "MISC") ):