X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=PairedEndReadQ.h;fp=PairedEndReadQ.h;h=36b703b059ed4bd4fad7a3eb873c216f49f22e19;hb=86e650e9577999a7ba00ab454d1f6bf674b0ea70;hp=f04afb7089e66a853aa798afbc5415b678ee8ca5;hpb=5b867894f164d9fa3fbc1a8e659b34890b977716;p=rsem.git

diff --git a/PairedEndReadQ.h b/PairedEndReadQ.h
index f04afb7..36b703b 100644
--- a/PairedEndReadQ.h
+++ b/PairedEndReadQ.h
@@ -61,6 +61,7 @@ void PairedEndReadQ::write(int argc, std::ostream* argv[]) {
 
 void PairedEndReadQ::calc_lq() {
 	low_quality = mate1.isLowQuality() && mate2.isLowQuality();
+	if (mate1.getReadLength() < OLEN || mate2.getReadLength() < OLEN) low_quality = true;
 }
 
 #endif /* PAIREDENDREADQ_H_ */