# HG changeset patch
# User peterjc
# Date 1486054281 18000
# Node ID 0098fe3690decac0c29833061949af602ba33b0f
# Parent  28020b797d227109151100c518887a84ba1ea565
planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_9_5 commit 5c6f46188dec8364b2306c05cae45ff50d3d3e06-dirty

diff -r 28020b797d22 -r 0098fe3690de tool_dependencies.xml
--- a/tool_dependencies.xml	Thu Feb 02 11:32:46 2017 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,61 +0,0 @@
-<?xml version="1.0"?>
-<tool_dependency>
-    <package name="MIRA" version="4.9.5">
-        <install version="1.0">
-            <actions_group>
-                <!-- Download the binaries for MIRA compatible with 64-bit OSX. -->
-                <!-- Currently unavailable...
-                <actions architecture="x86_64" os="darwin">
-                    <action type="download_by_url">http://downloads.sourceforge.net/project/mira-assembler/MIRA/development/mira_4.9.5_2_darwin14.3.0_x86_64_static.tar.bz2</action>
-                    <action type="move_directory_files">
-                         <source_directory>bin</source_directory>
-                         <destination_directory>$INSTALL_DIR</destination_directory>
-                     </action>
-                </actions>
-                -->
-                <!-- Download the binaries for MIRA compatible with 64-bit Linux. -->
-                <actions architecture="x86_64" os="linux">
-                    <!-- http://downloads.sourceforge.net/project/mira-assembler/MIRA/development/mira_4.9.5_2_linux-gnu_x86_64_static.tar.bz2 -->
-                    <action type="download_by_url" sha256sum="3848885cb041cd9bf7aa8f220dd3f084443f5060fa433b669f7d28880ba4c61f">https://depot.galaxyproject.org/software/mira/mira_4.9.5_linux_x64.tar.bz2</action>
-                    <action type="move_directory_files">
-                        <source_directory>bin</source_directory>
-                        <destination_directory>$INSTALL_DIR</destination_directory>
-                    </action>
-                </actions>
-                <!-- This actions tag is only processed if none of the above tags resulted in a successful installation. -->
-                <actions>
-                    <action type="shell_command">echo "ERROR: Automated installation on your operating system and CPU architecture combination is not yet supported."</action>
-                    <action type="shell_command">echo "Your machine details (the output from 'uname' and 'arch'):"</action>
-                    <action type="shell_command">uname</action>
-                    <action type="shell_command">arch</action>
-                    <action type="shell_command">echo "If pre-compiled MIRA binaries are now available for this, please report this"</action>
-                    <action type="shell_command">echo "via https://github.com/peterjc/galaxy_mira/issues - thank you!"</action>
-                    <action type="shell_command">false</action>
-                    <!-- The 'false' command will return an error, so Galaxy should treat this as a failed install -->
-                </actions>
-                <!-- The $PATH environment variable is only set if one of the above <actions> tags resulted in a successful installation. -->
-                <action type="set_environment">
-                    <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR</environment_variable>
-                </action>
-                <!-- Note we append a trailing slash as currently expected by the wrapper XML file -->
-                <action type="set_environment">
-                    <environment_variable action="set_to" name="MIRA4_9">$INSTALL_DIR/</environment_variable>
-                </action>
-            </actions_group>
-        </install>
-        <readme>
-Downloads MIRA v4.9.5 from Sourceforge, requesting Bastien's precompiled binaries
-for 64 bit (x86_64) Linux. Currently the Mac OS X binaries are not available.
-
-Other platforms where compilation from source would be required (e.g. 32 bit Linux)
-are not supported by this automated installation script.
-
-http://chevreux.org/projects_mira.html
-http://sourceforge.net/projects/mira-assembler/
-
-The environment variable ``$MIRA4_9`` will point to the folder containing the
-binaries (with a trailing slash), and this is also pre-pended to the``$PATH``
-variable.
-        </readme>
-    </package>
-</tool_dependency>