--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/expose-outputs-to-galaxy-history.sh	Sun Dec 30 12:55:49 2018 -0500
@@ -0,0 +1,24 @@
+# change directory to tool outputs directory
+cd ${REPORT_FILES_PATH}
+
+# copy outputs from tool outputs directory to corresponding galaxy output path
+if [ -e "rmarkdown_report.html" ]; then
+  cp rmarkdown_report.html ${REPORT}
+fi
+
+if [ -e "index.html" ]; then
+  cp index.html ${REPORT}
+fi
+
+
+if [ -e trim-trimmed-pair1.fastq ]; then
+  cp trim-trimmed-pair1.fastq ${X_1}
+fi
+
+if [ -e trim-trimmed-pair2.fastq ]; then
+  cp trim-trimmed-pair2.fastq ${X_2}
+fi
+
+if [ -e trim-trimmed.fastq ]; then
+  cp trim-trimmed.fastq ${X_3}
+fi
\ No newline at end of file