Mercurial > repos > brasset_jensen > srnapipe

diff sRNAPipe.xml @ 70:be25d16676f6 draft

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"planemo upload for repository https://github.com/GReD-Clermont/sRNAPipe/ commit 1b35c33c35e4d5e11764941c277edd2e1f97f729"
author brasset_jensen
date Thu, 06 Feb 2020 10:32:47 -0500
parents fa794d2a5aaf
children 71d5983dd41e
line wrap: on
line diff
--- 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>