annotate tool_dependencies.xml @ 0:47c4dfd5aed5 draft

Imported from capsule None

<?xml version="1.0"?>
<tool_dependency>
    <package name="diamond" version="0.6.13">
        <install version="1.0">
            <actions_group>
                <!-- Download the binaries for BLAST+ compatible with 64-bit Linux. -->
                <actions os="linux" architecture="x86_64">
                    <action type="download_by_url">http://www-ab.informatik.uni-tuebingen.de/data/software/diamond/download/public/diamond-linux64.tar.gz</action>
                    <action type="move_file">
                        <source>diamond</source>
                        <destination>$INSTALL_DIR</destination>
                    </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 is currently not supported."</action>
                    <action type="shell_command">echo "Please report this via https://github.com/bgruening/galaxytools/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 $PATH environment variable is only set if one of the above <actions> tags resulted in a successful installation. -->
                <action type="set_environment">
                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable>
                    <environment_variable name="DIAMOND_ROOT_DIR" action="set_to">$INSTALL_DIR</environment_variable>
                </action>
            </actions_group>
        </install>
        <readme>DIAMOND is a new high-throughput program for aligning a file of short reads against a protein reference database such as NR, at 20,000 times the speed of BLASTX, with high sensitivity</readme>
    </package>
</tool_dependency>