# HG changeset patch
# User iuc
# Date 1485277718 18000
# Node ID 87983967544bf31c26784bff8b2f1c3e513a11bb
# Parent  5e3543b1ef9f329324be6bd8ba2b3032fb978c56
planemo upload commit c8dc021bd99764eacaa17cbe4f44bcdacca00414

diff -r 5e3543b1ef9f -r 87983967544b busco.xml
--- a/busco.xml	Thu Jan 12 15:12:47 2017 -0500
+++ b/busco.xml	Tue Jan 24 12:08:38 2017 -0500
@@ -15,7 +15,9 @@
         --evalue ${adv.evalue}
         ${adv.long}
         --limit ${adv.limit}
-        --species ${adv.species}
+        #if $adv.species:
+            --species '${adv.species}'
+        #end if
         --tarzip
     ]]></command>
 
@@ -39,7 +41,7 @@
         <section name="adv" title="Advanced Options" expanded="False">
             <param argument="--evalue" type="float" value="0.01" label="E-value cutoff for BLAST searches."/>
             <param argument="--limit" type="integer" value="3" label="How many candidate regions to consider"/>
-            <param argument="--species" type="text" value="generic" label="Name of existing Augustus species gene finding metaparameters"/>
+            <param argument="--species" type="text" optional="True" label="Name of existing Augustus species gene finding metaparameters"/>
             <param argument="--long" type="boolean" checked="false" truevalue="--long" falsevalue="" label="Optimization mode Augustus self-training" help="Adds considerably to run time, but can improve results for some non-model organisms"/>
         </section>
     </inputs>