# HG changeset patch
# User peterjc
# Date 1432226166 14400
# Node ID 082d6adb57a500628e21d5b5b76817657b15081a
# Parent  557118c7e29ebac48fd7fc27ae543b80c0785bbb
planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/tools/mira3/ commit 98d4929ffe5175600338056bfb7a4407cba8d21d

diff -r 557118c7e29e -r 082d6adb57a5 tools/mira3/README.rst
--- a/tools/mira3/README.rst	Thu May 21 10:52:16 2015 -0400
+++ b/tools/mira3/README.rst	Thu May 21 12:36:06 2015 -0400
@@ -84,6 +84,7 @@
         - Updated URL for automated installation of MIRA v3.4.1.1
 v0.0.11 - Tool definition now embeds citation information.
         - Planemo for Tool Shed upload (``.shed.yml``, internal change only).
+        - MIRA 3.4.1.1 dependency now declared via dedicated Tool Shed package.
 ======= ======================================================================
 
 
diff -r 557118c7e29e -r 082d6adb57a5 tools/mira3/tool_dependencies.xml
--- a/tools/mira3/tool_dependencies.xml	Thu May 21 10:52:16 2015 -0400
+++ b/tools/mira3/tool_dependencies.xml	Thu May 21 12:36:06 2015 -0400
@@ -1,27 +1,6 @@
 <?xml version="1.0"?>
 <tool_dependency>
     <package name="MIRA" version="3.4.1.1">
-        <install version="1.0">
-            <actions>
-                <!-- Sourceforge doesn't offer nice clean download URLs which is a shame -->      
-                <action type="download_by_url">http://downloads.sourceforge.net/project/mira-assembler/MIRA/Older%20releases/V3.4.0/mira_3.4.1.1_prod_linux-gnu_x86_64_static.tar.bz2</action>
-                <action type="move_directory_files">
-                    <source_directory>bin</source_directory>
-                    <destination_directory>$INSTALL_DIR</destination_directory>
-                </action>
-                <action type="set_environment">
-                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable>
-                </action>
-            </actions>
-        </install>
-        <readme>
-Downloads MIRA v3.4 from Sourceforge, requesting Bastien's precompiled binaries
-for 64bit Linux (x86_64). He also has binaries for 32bit Linux, which we could
-use once the Galaxy installation framework allow that kind of flexibility.
-
-http://chevreux.org/projects_mira.html
-http://sourceforge.net/projects/mira-assembler/
-        </readme>
+        <repository changeset_revision="af39588c4839" name="package_mira_3_4_1_1" owner="peterjc" toolshed="https://testtoolshed.g2.bx.psu.edu" />
     </package>
 </tool_dependency>
-