# HG changeset patch
# User brasset_jensen
# Date 1581003167 18000
# Node ID be25d16676f680a08a34726f5c896c0c8cfe6cdb
# Parent  fa794d2a5aafc652377f727ed941093364543c72
"planemo upload for repository https://github.com/GReD-Clermont/sRNAPipe/ commit 1b35c33c35e4d5e11764941c277edd2e1f97f729"

diff -r fa794d2a5aaf -r be25d16676f6 sRNAPipe.xml
--- a/sRNAPipe.xml	Tue Feb 12 04:11:07 2019 -0500
+++ b/sRNAPipe.xml	Thu Feb 06 10:32:47 2020 -0500
@@ -34,7 +34,7 @@
         </xml>
     </macros>
     <requirements>
-        <requirement type="package" version="1.1">srnapipe</requirement>
+        <requirement type="package" version="1.1.1">srnapipe</requirement>
     </requirements>
     <version_command>srnapipe | grep 'version' | grep "version" | cut -d ' ' -f 3</version_command>
     <command detect_errors="aggressive"><![CDATA[
@@ -90,8 +90,6 @@
         #else
     --snRNAs '$snrnas.snrnas.source.indices.fields.path'
         #end if
-    #else
-    --snRNAs "None"
     #end if
 
     #if str($rrnas.rrnas.use_ref) == 'true'
@@ -101,8 +99,6 @@
         #else
     --rRNAs '$rrnas.rrnas.source.indices.fields.path'
         #end if
-    #else
-    --rRNAs "None"
     #end if
 
     #if str($trnas.trnas.use_ref) == 'true'
@@ -112,8 +108,6 @@
         #else
     --tRNAs '$trnas.trnas.source.indices.fields.path'
         #end if
-    #else
-    --tRNAs "None"
     #end if
 
     --si_min $sirna.si_min
@@ -123,6 +117,7 @@
     --dir $html_out.files_path
     --html $html_out
     --PPPon $PPPon
+    --threads '\${GALAXY_SLOTS:-4}'
         ]]>
     </command>
     <inputs>