diff --git a/CGATPipelines/PipelinePreprocess.py b/CGATPipelines/PipelinePreprocess.py
index d3df2327b..864d13cc6 100644
--- a/CGATPipelines/PipelinePreprocess.py
+++ b/CGATPipelines/PipelinePreprocess.py
@@ -545,8 +545,8 @@ def build(self, infiles, outfiles, output_prefix):
 
             if untrimmed:
                 processing_options += \
-                    "--untrimmed-output=%(untrimmed_output1)s" \
-                    "--untrimmed-output-paired=%(untrimmed_output2)s" % locals()
+                    " --untrimmed-output=%(untrimmed_output1)s" \
+                    " --untrimmed-paired-output=%(untrimmed_output2)s" % locals()
 
             cmds.append('''
             cutadapt %(processing_options)s %(in1)s %(in2)s