# HG changeset patch
# User mingchen0919
# Date 1506456798 14400
# Node ID 79b375ee134cafd611addf5161292eed0b6dabef
# Parent  0d86b36606d3ae7b45d390d9da20fc4823a92772
planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_collection_builder commit 88ca36a41aa577ba888cee39cf81b176bf7e68db-dirty

diff -r 0d86b36606d3 -r 79b375ee134c collection_paired.Rmd
--- a/collection_paired.Rmd	Tue Sep 26 15:19:50 2017 -0400
+++ b/collection_paired.Rmd	Tue Sep 26 16:13:18 2017 -0400
@@ -23,7 +23,8 @@
 # Rename files
 
 ```{r}
-file.copy("FORWARD_INPUT", './OUTPUT_DIR/forward.FORMAT')
-file.copy("REVERSE_INPUT", './OUTPUT_DIR/reverse.FORMAT')
+dir.create('files_directory')
+file.copy("FORWARD_INPUT", './files_directory/forward.FORMAT')
+file.copy("REVERSE_INPUT", './files_directory/reverse.FORMAT')
 ```
 
diff -r 0d86b36606d3 -r 79b375ee134c collection_paired.xml
--- a/collection_paired.xml	Tue Sep 26 15:19:50 2017 -0400
+++ b/collection_paired.xml	Tue Sep 26 16:13:18 2017 -0400
@@ -47,8 +47,7 @@
     <outputs>
         <data format="html" name="report" label="Collection builder (paired collection)" />
         <collection type="paired" name="list_collection">
-            <data name="forward" value="forward.${format}" />
-            <data name="reverse" value="reverse.${format}" />
+            <discover_datasets pattern="__name_and_ext__" directory="files_directory" />
         </collection>
     </outputs>
 </tool>
\ No newline at end of file