# HG changeset patch
# User rnateam
# Date 1510528581 18000
# Node ID 7a84c6c1c4e035ec06184c249d60caeaab62549c
# Parent  2c51e264432a381b5827a624758fc95daffd3243
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/rnacode commit 608bf2d6f11fe6dceaa0060f729bdbb66cfee867

diff -r 2c51e264432a -r 7a84c6c1c4e0 rnacode.xml
--- a/rnacode.xml	Fri Jun 19 11:13:11 2015 -0400
+++ b/rnacode.xml	Sun Nov 12 18:16:21 2017 -0500
@@ -1,5 +1,5 @@
 <tool id="rbc_rnacode" name="RNAcode" version="0.3.0">
-    <description>Analyze the protein coding potential in MSA</description>
+    <description>Analyze the protein coding potential in MSA.</description>
     <requirements>
         <requirement type="package" version="0.3">rnacode</requirement>
     </requirements>
@@ -81,10 +81,10 @@
         </param>
     </inputs>
     <outputs>
-        <data argument="--outfile" name="outFileDefault" format="tabular" label="${tool.name} on ${on_string}">
+        <data name="outFileDefault" format="tabular" label="${tool.name} on ${on_string}">
             <filter>outputFormat == '--tabular'</filter>
         </data>
-        <data argument="--outfile" name="outFileGTF" format="gtf" label="${tool.name} on ${on_string}">
+        <data name="outFileGTF" format="gtf" label="${tool.name} on ${on_string}">
             <filter>outputFormat == '--gtf'</filter>
         </data>
         <collection name="output_eps" type="list" label="Plots for ${tool.name} on ${on_string}">
diff -r 2c51e264432a -r 7a84c6c1c4e0 tool_dependencies.xml
--- a/tool_dependencies.xml	Fri Jun 19 11:13:11 2015 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,17 +0,0 @@
-<?xml version="1.0"?>
-<tool_dependency>
-    <package name="rnacode" version="0.3">
-        <install version="1.0">
-            <actions>
-                <action type="download_by_url">https://raw.githubusercontent.com/bgruening/download_store/master/RNAcode/RNAcode-0.3.tar.gz</action>
-                <action type="autoconf"/>
-                <action type="set_environment">
-                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
-                    <environment_variable name="RNACODE_ROOT_PATH" action="set_to">$INSTALL_DIR</environment_variable>
-                </action>
-            </actions>
-        </install>
-        <readme>
-        </readme>
-    </package>
-</tool_dependency>