diff --git a/protected/gatk-tools-protected/src/main/java/org/broadinstitute/gatk/tools/walkers/rnaseq/SplitNCigarReads.java b/protected/gatk-tools-protected/src/main/java/org/broadinstitute/gatk/tools/walkers/rnaseq/SplitNCigarReads.java index 441a01c04..b682e3bfc 100644 --- a/protected/gatk-tools-protected/src/main/java/org/broadinstitute/gatk/tools/walkers/rnaseq/SplitNCigarReads.java +++ b/protected/gatk-tools-protected/src/main/java/org/broadinstitute/gatk/tools/walkers/rnaseq/SplitNCigarReads.java @@ -107,7 +107,7 @@ import java.util.ArrayList; * -R reference.fasta \ * -I input.bam \ * -o output.bam \ - * -U ALLOW_N_CIGARS + * -U ALLOW_N_CIGAR_READS * * *

Note