# HG changeset patch
# User iuc
# Date 1575291702 18000
# Node ID 3a0bd09a41dd3dcdec01b5282bec30166c4d5316
# Parent  eaee459f3d698e5693adf683b627ec3e41c4d4b3
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/prokka/ commit f64c36610e6ca2240e4d745a5708d0d02ba4a16d"

diff -r eaee459f3d69 -r 3a0bd09a41dd prokka.xml
--- a/prokka.xml	Wed Mar 28 12:38:42 2018 -0400
+++ b/prokka.xml	Mon Dec 02 08:01:42 2019 -0500
@@ -1,4 +1,4 @@
-<tool id="prokka" name="Prokka" version="1.13">
+<tool id="prokka" name="Prokka" version="1.13+galaxy1">
     <description>Prokaryotic genome annotation</description>
     <requirements>
         <requirement type="package" version="1.13">prokka</requirement>
@@ -183,15 +183,25 @@
             <param name="input" ftype="fasta" value="phiX174.fasta" />
             <param name="outputs" value="gff,gbk,fna,faa,ffn,sqn,fsa,tbl,tsv,err,txt" />
             <output name="out_gff" file="out.gff" />
-            <output name="out_gbk" file="out.gbk" lines_diff="14" />
+            <output name="out_gbk" >
+                <assert_contents>
+                    <has_text_matching expression="LOCUS" />
+                    <has_text_matching expression="//" />
+                </assert_contents>
+            </output>
             <output name="out_fna" file="out.fna" />
             <output name="out_faa" file="out.faa" />
             <output name="out_ffn" file="out.ffn" />
-            <output name="out_sqn" file="out.sqn" lines_diff="84" />
+            <output name="out_sqn" >
+                <assert_contents>
+                    <has_text_matching expression="Seq-entry" />
+                    <has_text_matching expression="contig2" />
+                </assert_contents>
+            </output>
             <output name="out_fsa" file="out.fsa" />
             <output name="out_tbl" file="out.tbl" />
             <output name="out_tsv" file="out.tsv" />
-            <output name="out_err" file="out.err" />
+            <output name="out_err" file="out.err" lines_diff="14" />
             <output name="out_txt" file="out.txt" />
             <output name="out_log">
                 <assert_contents>