annotate tool_dependencies.xml @ 4:f0606dfd5195 draft

planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/mafft commit 9d8962636c9b7e9370770ce343de332201ff9fe3-dirty

<?xml version="1.0"?>
<tool_dependency>
    <package name="mafft" version="7.221">
        <install version="1.0">
            <actions>
                <action type="download_by_url">https://raw.githubusercontent.com/bgruening/download_store/master/MAFFT/mafft-7.221-with-extensions-src.tgz</action>
                <action type="change_directory">./core</action>
                <action type="shell_command">sed -i "s|\(PREFIX = \).*$|\1$INSTALL_DIR|" Makefile</action>
                <action type="shell_command">make clean; make; make install</action>
                <action type="change_directory">../extensions</action>
                <action type="shell_command">sed -i "s|\(PREFIX = \).*$|\1$INSTALL_DIR|" Makefile</action>
                <action type="shell_command">make clean; make; make install</action>
                <action type="set_environment">
                    <environment_variable name="MAFFT_ROOT_PATH" action="set_to">$INSTALL_DIR</environment_variable>
                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
                </action>
            </actions>
        </install>
        <readme>
        </readme>
    </package>
</tool_dependency>