Mercurial > repos > nml > package_python_3_4_hivclustering_1_2_3

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planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_hivclustering_1_2_3 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa-dirty
author nml
date Thu, 07 Jul 2016 13:34:08 -0400
parents 5b977873cc87
children
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<?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="bioext" version="0.17.3">
          <repository changeset_revision="1ca9f5fd8b65" name="package_python_3_4_bioext_0_17_3" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
        </package>
        <package name="fakemp" version="0.9.1">
          <repository changeset_revision="13da2754601c" name="package_python_3_4_fakemp_0_9_1" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
        </package>
        <package name="hyphy-python" version="0.1.3">
          <repository changeset_revision="5c14a49141f0" name="package_python_3_4_hyphy_python_0_1_3" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
        </package>
        <package name="hppy" version="0.9.6">
          <repository changeset_revision="46decde5b780" name="package_python_3_4_hppy_0_9_6" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
        </package>
        <package name="cython" version="0.23.4">
          <repository changeset_revision="52c11d398790" name="package_python_3_4_cython_0_23_4" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
        </package>
        <package name="hivclustering" version="1.2.3">
            <install version="1.0">
                <actions>
                    <action type="download_by_url">https://github.com/veg/hivclustering/archive/1.2.3.tar.gz</action>
                    <action type="set_environment_for_install">
                        <repository changeset_revision="52c11d398790" name="package_python_3_4_cython_0_23_4" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu">
                            <package name="cython" version="0.23.4" />
                        </repository>
                        <repository changeset_revision="5c14a49141f0" name="package_python_3_4_hyphy_python_0_1_3" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu">
                            <package name="hyphy-python" version="0.1.3" />
                        </repository>
                        <repository changeset_revision="46decde5b780" name="package_python_3_4_hppy_0_9_6" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu">
                            <package name="hppy" version="0.9.6" />
                        </repository>
                        <repository changeset_revision="1ca9f5fd8b65" name="package_python_3_4_bioext_0_17_3" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu">
                            <package name="bioext" version="0.17.3" />
                        </repository>
                        <repository changeset_revision="13da2754601c" name="package_python_3_4_fakemp_0_9_1" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu">
                            <package name="fakemp" version="0.9.1" />
                        </repository>
                        <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="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/python</environment_variable>
                      <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_BIOEXT]</environment_variable>
                      <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_FAKEMP]</environment_variable>
                      <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_HYPHY_PYTHON]</environment_variable>
                      <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_HPPY]</environment_variable>
                      <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_CYTHON]</environment_variable>
                      <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
                      <environment_variable action="set_to" name="PATH_HIVCLUSTERING">$INSTALL_DIR/bin</environment_variable>
                      <environment_variable action="set_to" name="PYTHONPATH_HIVCLUSTERING">$INSTALL_DIR/lib/python</environment_variable>
                    </action>
                </actions>
            </install>
            <readme>hivclustering from https://github.com/veg/hivclustering</readme>
        </package>
</tool_dependency>