diff --git a/cwl/run.sh b/cwl/run.sh
index 248958342476bd724724b54ba70d388c2d634e3e..b6e20c656dd838891b8ef0b29caac0f8b6fb2051 100755
--- a/cwl/run.sh
+++ b/cwl/run.sh
@@ -125,7 +125,7 @@ else
 fi
 
 # Remove downloaded files
-echo "Removing irods files"
-grep "[0-9]\+_irods:" $yaml | awk '{print "rm -f "$2}' | sh
+echo "Removing unprocessed raw omics-data transfered irods files"
+grep "[0-9]\+_irods: /unlock/projects/.*/unprocessed" $yaml | awk '{print "rm -f "$2}' | sh
 
 exit 0