Merge pull request #946 from broadinstitute/ct-empty-barcodes

add guardrails for the case where observed barcodes are null
broadinstitute · Apr 10, 2019 · 9254e14 · 9254e14
2 parents 27c36ee + 4cdb643
commit 9254e14
Showing 1 changed file with 7 additions and 6 deletions.
diff --git a/util/illumina_indices.py b/util/illumina_indices.py
@@ -1803,12 +1803,13 @@ def guess_barcodes_for_sample(self, sample_name):
                 out_dict["match_type"] = "high_count_novel_pair"
                 break
 
-        out_dict["guessed_barcode_1"]           = putative_match[0]
-        out_dict["guessed_barcode_1_name"]      = self.barcode_name_map[putative_match[0]]
-        if is_dual_index:
-            out_dict["guessed_barcode_2"]           = putative_match[1]
-            out_dict["guessed_barcode_2_name"]      = self.barcode_name_map[putative_match[1]]
-            out_dict["guessed_barcodes_read_count"] = self.barcodes_seen[(putative_match[0],putative_match[1])]
+        if putative_match[0]!=None:
+            out_dict["guessed_barcode_1"]           = putative_match[0]
+            out_dict["guessed_barcode_1_name"]      = self.barcode_name_map[putative_match[0]]
+            if is_dual_index and putative_match[1] != None:
+                out_dict["guessed_barcode_2"]           = putative_match[1]
+                out_dict["guessed_barcode_2_name"]      = self.barcode_name_map[putative_match[1]]
+                out_dict["guessed_barcodes_read_count"] = self.barcodes_seen[(putative_match[0],putative_match[1])]
 
         return out_dict