X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=BamConverter.h;fp=BamConverter.h;h=cca0eae895fd347b243cc8f2f315be471c64498c;hb=0a534802ee9fa3d488995a68621ff04f0fc6be7f;hp=9b543087443aac68a72999a13e874b199d613cc4;hpb=229ba9d68e0a801907631887640ab475d51c560c;p=rsem.git

diff --git a/BamConverter.h b/BamConverter.h
index 9b54308..cca0eae 100644
--- a/BamConverter.h
+++ b/BamConverter.h
@@ -91,7 +91,7 @@ void BamConverter::process() {
 		if (cnt % 1000000 == 0) { printf("."); fflush(stdout); }
 
 		// at least one segment is not properly mapped
-		if ((b->core.flag & 0x0004) || isPaired && (b2->core.flag & 0x0004)) continue;
+		if ((b->core.flag & 0x0004) || (isPaired && (b2->core.flag & 0x0004))) continue;
 
 		const Transcript& transcript = transcripts.getTranscriptAt(b->core.tid + 1);