# HG changeset patch
# User iuc
# Date 1468337797 14400
# Node ID 8bd817614cc854ae2a1e99fc78f17b2f16ff0fb2
# Parent  258c64019e506f5aae71f62b5576f077297ae0d0
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/trinity commit acdc3dfe5fd6317ae57899aa0e83130dff7460e7

diff -r 258c64019e50 -r 8bd817614cc8 align_and_estimate_abundance.xml
--- a/align_and_estimate_abundance.xml	Tue Jun 28 12:22:40 2016 -0400
+++ b/align_and_estimate_abundance.xml	Tue Jul 12 11:36:37 2016 -0400
@@ -38,6 +38,8 @@
                 --SS_lib_type $inputs.strand.library_type
             #end if
 
+            --max_ins_size $inputs.paired_fragment_length
+
         #else:
             --single $inputs.input
 
@@ -52,8 +54,6 @@
             #end if
         #end if
 
-        --max_ins_size $inputs.paired_fragment_length
-
         ## Additional parameters.
         #if $additional_params.gene_map.has_gene_map == "no":
             --gene_trans_map $additional_params.gene_map.gene_trans_map
diff -r 258c64019e50 -r 8bd817614cc8 tool_dependencies.xml
--- a/tool_dependencies.xml	Tue Jun 28 12:22:40 2016 -0400
+++ b/tool_dependencies.xml	Tue Jul 12 11:36:37 2016 -0400
@@ -1,7 +1,7 @@
 <?xml version="1.0"?>
 <tool_dependency>
     <package name="trinity" version="2.1.1">
-        <repository changeset_revision="cec8b7f159c5" name="package_trinity_2_1_1" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
+        <repository changeset_revision="1585b0b46b84" name="package_trinity_2_1_1" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
     </package>
     <package name="bowtie" version="1.1.2">
         <repository changeset_revision="a1c1a92e13a6" name="package_bowtie_1_1_2" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />