# HG changeset patch
# User mingchen0919
# Date 1506535542 14400
# Node ID 86a31717730efd2ad1ac4fcd0ab606f8ef547ab7
# Parent  2d1c5d1633bfa65d8f120ae3f8586f9c3011f726
planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastq_dump commit c9517f0b061cdca3b79678d9a2620e1e43115d42-dirty

diff -r 2d1c5d1633bf -r 86a31717730e fastq_dump_se.xml
--- a/fastq_dump_se.xml	Wed Sep 27 13:41:45 2017 -0400
+++ b/fastq_dump_se.xml	Wed Sep 27 14:05:42 2017 -0400
@@ -34,6 +34,7 @@
 
                 -r $report
                 -d $report.files_path
+                -s $sink_output
 
                 -t '${__tool_directory__}/fastq_dump_se.Rmd'
         ]]>
@@ -49,5 +50,6 @@
         <collection type="list" name="list_collection">
             <discover_datasets pattern="__name_and_ext__" directory="read_files_directory" />
         </collection>
+        <data format="txt" name="sink_output" label="sink output" from_work_dir="sink_output.txt" />
     </outputs>
 </tool>
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