annotate tool_dependencies.xml @ 0:1c03c304fe69 draft default tip

planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc

<?xml version="1.0"?>
<tool_dependency>
    <package name="MIRA" version="3.4.1.1">
        <install version="1.0">
            <actions_group>
                <!-- Download the binaries for MIRA compatible with 64-bit Linux. -->
                <actions architecture="x86_64" os="linux">
                    <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>
                <!-- 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/pico_galaxy/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>
                <action type="set_environment">
                    <environment_variable action="set_to" name="MIRA3">$INSTALL_DIR</environment_variable>
                </action>
            </actions_group>
        </install>
        <readme>
Downloads MIRA v3.4.1.1 from Sourceforge, requesting Bastien's precompiled binaries
for 64bit Linux (x86_64). He also has binaries for 32bit Linux (686 only), 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/

The environment variable ``$MIRA3`` will point to the folder containing the binaries,
which is also pre-pended to the ``$PATH`` variable.
        </readme>
    </package>
</tool_dependency>