view tool_dependencies.xml @ 6:87189153f859 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_scikit_learn_0_15 commit e6f0b88b7a59f0a10827fd55436b137b13cd1921

<?xml version="1.0"?>
<tool_dependency>
        <package name="numpy" version="1.9">
            <repository changeset_revision="816d3480b0b1" name="package_numpy_1_9" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
        </package>
        <package name="scipy" version="0.14">
            <repository changeset_revision="01f0415771cf" name="package_scipy_0_14" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
        </package>
        <package name="matplotlib" version="1.4">
            <repository changeset_revision="2ad8f58bf6cf" name="package_matplotlib_1_4" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
        </package>
        <package name="scikit_learn" version="0.15">
            <install version="1.0">
                <actions>
                    <action type="download_by_url">https://pypi.python.org/packages/source/s/scikit-learn/scikit-learn-0.15.2.tar.gz#md5#d9822ad0238e17b382a3c756ea94fe0d</action>
                    <action type="set_environment_for_install">
                        <repository changeset_revision="816d3480b0b1" name="package_numpy_1_9" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
                            <package name="numpy" version="1.9" />
                        </repository>
                        <repository changeset_revision="01f0415771cf" name="package_scipy_0_14" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
                            <package name="scipy" version="0.14" />
                        </repository>
                        <repository changeset_revision="2ad8f58bf6cf" name="package_matplotlib_1_4" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
                            <package name="matplotlib" version="1.4" />
                        </repository>
                    </action>

                    <action type="make_directory">$INSTALL_DIR/lib/python</action>
                    <action type="template_command">
                    export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp;
                    python setup.py install --install-lib $INSTALL_DIR/lib/python
                    </action>
                    <action type="set_environment">
                        <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
                        <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
                        <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable>
                        <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable>
                        <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_SCIPY]</environment_variable>
                        <environment_variable action="prepend_to" name="PATH">$ENV[PATH_SCIPY]</environment_variable>
                        <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_MATPLOTLIB]</environment_variable>
                        <environment_variable action="set_to" name="PYTHONPATH_SCIKIT_LEARN">$INSTALL_DIR/lib/python</environment_variable>
                        </action>
                </actions>
            </install>
            <readme>
            Compiling scikit-learn requires a C compiler (typically gcc). 
            The PYTHONPATH for scikit-learn can be accessed through PYTHONPATH_SCIKIT_LEARN.
            
            Wrapper development: https://github.com/bgruening/galaxytools/tree/master/orphan_tool_dependencies
            </readme>
        </package>
</tool_dependency>