From cf2395fc2bdd406f3ca3b3dc2b34cd83f09cb0ce Mon Sep 17 00:00:00 2001
From: Caleb Choo <cchoo@bcgsc.ca>
Date: Wed, 16 Aug 2023 10:40:14 -0700
Subject: [PATCH] #355 fix chromosome comparison check

---
 src/mavis/validate/align.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/src/mavis/validate/align.py b/src/mavis/validate/align.py
index b4aafe6a..fe298c3f 100644
--- a/src/mavis/validate/align.py
+++ b/src/mavis/validate/align.py
@@ -563,7 +563,7 @@ def supports_primary_event(alignment):
         std_reads = set()
         alignments = []
         for raw_read in reads_by_query.get(contig.seq, []):
-            if raw_read.reference_name not in {evidence.break1.chr, evidence.break2.chr}:
+            if raw_read.reference_name != evidence.break1.chr and raw_read.reference_name != evidence.break2.chr:
                 continue
             read = evidence.standardize_read(raw_read)
             read.cigar = _cigar.merge_internal_events(