comparison tool_dependencies.xml @ 0:86947a99997b draft

planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_hyphy_python_0_1_3 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa-dirty

0:86947a99997b

<?xml version="1.0"?>
<tool_dependency>
    <package name="python" version="3.4">
        <repository changeset_revision="20ecf5cd3c0e" name="package_python_3_4" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
    </package>
    <package name="hyphy-python" version="0.1.3">
        <install version="1.0">
            <actions>
                <action type="set_environment_for_install">
                    <repository changeset_revision="20ecf5cd3c0e" name="package_python_3_4" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
                        <package name="python" version="3.4" />
                    </repository>
                </action>
                <action type="shell_command">git clone https://github.com/veg/hyphy-python</action>
                <action type="change_directory">hyphy-python</action>
                <action type="shell_command">git checkout 0.1.3</action>
                <action type="shell_command">git submodule update --init</action>
                <action type="make_directory">$INSTALL_DIR/lib/python</action>
                <action type="shell_command">
                    export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp;
                    python3 setup.py install --install-lib $INSTALL_DIR/lib/python --install-scripts $INSTALL_DIR/bin
                </action>
                <action type="set_environment">
                    <environment_variable action="append_to" name="PYTHONPATH">$INSTALL_DIR/lib/pyhton</environment_variable>
                    <environment_variable action="append_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
                    <environment_variable action="set_to" name="PYTHONPATH_HYPHY_PYTHON">$INSTALL_DIR/lib/python</environment_variable>
                    <environment_variable action="set_to" name="PATH_HYPHY_PYTHON">$INSTALL_DIR/bin</environment_variable>
                    <environment_variable action="set_to" name="HYPHY_PYTHON_ROOT_DIR">$INSTALL_DIR</environment_variable>
                </action>
            </actions>
        </install>
        <readme>
This installs hyphy-python 0.1.3.
        </readme>
    </package>
</tool_dependency>