added test for parsing multu clinsigs

tests/parse/test_parse_clnsig.py

@@ -1,27 +1,55 @@
 from scout.parse.variant.clnsig import parse_clnsig
 
-def test_parse_clnsig():
-    ## GIVEN some clnsig information
+def test_parse_clnsig_():
+
+    ## Test parsing classical clnsig representation
     variant = {
         'info_dict':{
             'CLNACC': "RCV000014440.17|RCV000014441.25|RCV000014442.25|RCV000014443.17|RCV000184011.1|RCV000188658.1",
             'CLNSIG': "5|5|5|5|5|5",
             'CLNREVSTAT': "conf|single|single|single|conf|conf",
             }
     }
-    
+
     ## WHEN parsing the clinical significance
     clnsig_annotations = parse_clnsig(
-        acc=variant['info_dict']['CLNACC'], 
-        sig=variant['info_dict']['CLNSIG'], 
+        acc=variant['info_dict']['CLNACC'],
+        sig=variant['info_dict']['CLNSIG'],
         revstat=variant['info_dict']['CLNREVSTAT'],
         transcripts=[]
     )
-    
+
     ## THEN assert that they where parsed correct
     assert len(clnsig_annotations) == 6
-    
+
     for entry in clnsig_annotations:
         if entry['accession'] == "RCV000014440.17":
             assert entry['value'] == 5
             assert entry['revstat'] == 'conf'
+
+
+    ## Test parsing clnsig combination of values from different submitters:
+    variant = {
+        'info_dict':{
+            'CLNACC': "265359",
+            'CLNSIG': "Pathogenic/Likely pathogenic",
+            'CLNREVSTAT': "criteria_provided,_multiple_submitters,_no_conflicts",
+            }
+    }
+    clinrevstat = variant['info_dict']['CLNREVSTAT']
+    revstat_groups = [rev.lstrip('_') for rev in clinrevstat.split(',')]
+
+    clnsig_annotations = parse_clnsig(
+        acc=variant['info_dict']['CLNACC'],
+        sig=variant['info_dict']['CLNSIG'],
+        revstat=variant['info_dict']['CLNREVSTAT'],
+        transcripts=[]
+    )
+
+    ## THEN assert that they where parsed correct
+    assert len(clnsig_annotations) == 2
+
+    for entry in clnsig_annotations:
+        assert entry['accession'] ==  int(variant['info_dict']['CLNACC'])
+        assert entry['value'] in ['Pathogenic', 'Likely pathogenic']
+        assert entry['revstat'] == ', '.join(revstat_groups)