diff --git a/protected/gatk-tools-protected/src/test/java/org/broadinstitute/gatk/tools/walkers/bqsr/BQSRIntegrationTest.java b/protected/gatk-tools-protected/src/test/java/org/broadinstitute/gatk/tools/walkers/bqsr/BQSRIntegrationTest.java index de2d7ae30..2c362acd2 100644 --- a/protected/gatk-tools-protected/src/test/java/org/broadinstitute/gatk/tools/walkers/bqsr/BQSRIntegrationTest.java +++ b/protected/gatk-tools-protected/src/test/java/org/broadinstitute/gatk/tools/walkers/bqsr/BQSRIntegrationTest.java @@ -292,7 +292,7 @@ public class BQSRIntegrationTest extends WalkerTest { " -R " + hg18Reference + " -I " + HiSeqBam + " -L " + HiSeqInterval + - " -SQQ 4 -q1 4 " + + " -SQQ 4 -ql 4 " + " -BQSR " + privateTestDir + "HiSeq.1mb.1RG.lowMaxCycle.table" + " -o /dev/null", 0,