diff --git a/workflow/scripts/annotate_peaks.R b/workflow/scripts/annotate_peaks.R
index 3629c4acf85e87440e17f2846e3beb56ba2c43ce..7680287cb7a090a337bf1181ef563341271d0611 100644
--- a/workflow/scripts/annotate_peaks.R
+++ b/workflow/scripts/annotate_peaks.R
@@ -17,7 +17,7 @@ args <- commandArgs(trailingOnly=TRUE)
 
 # Check input args
 if (length(args) != 2) {
-  stop("Usage: annotate_peaks.R [ annotate_design.tsv ] [ genome_assembly ]", call.=FALSE)
+  stop("Usage: annotate_peaks.R annotate_design.tsv genome_assembly", call.=FALSE)
 }
 
 design_file <- args[1]
diff --git a/workflow/scripts/diff_peaks.R b/workflow/scripts/diff_peaks.R
index 76caa95495c7cae1d014530e78e1e1e3c4af09dc..aae1d24751f24396fff6fe712c28be27e36b0db3 100644
--- a/workflow/scripts/diff_peaks.R
+++ b/workflow/scripts/diff_peaks.R
@@ -8,7 +8,7 @@ args <- commandArgs(trailingOnly=TRUE)
 
 # Check input args
 if (length(args) != 1) {
-  stop("Usage: diff_peaks.R [ annotate_design.tsv ] ", call.=FALSE)
+  stop("Usage: diff_peaks.R annotate_design.tsv ", call.=FALSE)
 }
 
 # Build DBA object from design file