# HG changeset patch
# User dfornika
# Date 1569016734 14400
# Node ID de600d7063284a3f8ebbf449a884e2baf048bc43
# Parent  e2b902d385a398546bf119c6ce85d84e33890cbf
planemo upload for repository https://github.com/dfornika/galaxytools/tree/master/tools/micall-lite commit c8241b460c9def5b434fa4350924599b09b17a69-dirty

diff -r e2b902d385a3 -r de600d706328 micall-lite.xml
--- a/micall-lite.xml	Fri Sep 20 17:09:24 2019 -0400
+++ b/micall-lite.xml	Fri Sep 20 17:58:54 2019 -0400
@@ -14,6 +14,7 @@
           micall
             '${input_pair.element_identifier}_R1.fastq.gz'
             '${input_pair.element_identifier}_R2.fastq.gz'
+          --outdir 'outdir'
         ]]>
     </command>
     <inputs>
@@ -22,19 +23,19 @@
     <outputs>
         <collection type="list" name="outputs">
             <data name="align" format="tabular">
-                <discover_datasets ext="align.csv" />
+                <discover_datasets directory="outdir" pattern="*align\.csv" />
             </data>
             <data name="amino" format="tabular">
-                <discover_datasets ext="amino.csv" />
+                <discover_datasets directory="outdir" pattern="*amino\.csv" />
             </data>
             <data name="conseq" format="tabular">
-                <discover_datasets ext="conseq.csv" />
+                <discover_datasets directory="outdir" pattern="*conseq\.csv" />
             </data>
             <data name="insert" format="tabular">
-                <discover_datasets ext="insert.csv" />
+                <discover_datasets directory="outdir" pattern="*insert\.csv" />
             </data>
             <data name="nuc" format="tabular">
-                <discover_datasets ext="nuc.csv" />
+                <discover_datasets directory="outdir" pattern="*nuc\.csv" />
             </data>
         </collection>
     </outputs>