comparison tool_dependencies.xml @ 1:3e11ba53f2a6 draft default tip

planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/packages/package_rpy_1_0_3 commit de7140295cce07e1bc1697e51dab4271c8d7a8a6

0:c0eb80864491

<?xml version="1.0"?>
<tool_dependency>
  <package name="R" version="2.11.0">
      <repository changeset_revision="2c0a13200a73" name="package_r_2_11_0" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
    </package>
    <package name="rpy" version="1.0.3">
      <install version="1.0">
          <actions>
              <!--
                Need to download from depot.galaxyproject.org, because the distributed version of rpy 1.0.3 
                doesn't recognize R 2.11.0 as a valid version.
                -->
                <action type="download_by_url">http://depot.galaxyproject.org/package/source/rpy-1.0.3.tar.gz</action>
                <action type="set_environment_for_install">
                  <repository changeset_revision="2c0a13200a73" name="package_r_2_11_0" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu">
                      <package name="R" version="2.11.0" />
                    </repository>
                </action>
                <action type="make_directory">$INSTALL_DIR/lib/python</action>
                <action type="shell_command">
                    export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp; 
                    python setup.py install --install-lib $INSTALL_DIR/lib/python --install-scripts $INSTALL_DIR/bin
                </action>
                <action type="set_environment">
                  <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
                    <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
                    <environment_variable action="set_to" name="PYTHONPATH_RPY">$INSTALL_DIR/lib/python</environment_variable>
                    <environment_variable action="set_to" name="PATH_RPY">$INSTALL_DIR/bin</environment_variable>
                </action>
            </actions>

1:3e11ba53f2a6

<?xml version="1.0"?>
<tool_dependency>
    <package name="numpy" version="1.9">
        <repository changeset_revision="f9289486f06d" name="package_numpy_1_9" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
    </package>
    <package name="R" version="2.11.0">
        <repository changeset_revision="497dd02b0fe2" name="package_r_2_11_0" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
    </package>
    <package name="rpy" version="1.0.3">
        <install version="1.0">
            <actions>
                <!--
                Need to download from depot.galaxyproject.org, because the distributed version of rpy 1.0.3
                doesn't recognize R 2.11.0 as a valid version.
                -->
                <action type="download_by_url">http://depot.galaxyproject.org/package/source/rpy-1.0.3.tar.gz</action>
                <action type="set_environment_for_install">
                    <repository changeset_revision="497dd02b0fe2" name="package_r_2_11_0" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu">
                        <package name="R" version="2.11.0" />
                    </repository>
                </action>
                <action type="make_directory">$INSTALL_DIR/lib/python</action>
                <action type="shell_command">
                    export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp;
                    python setup.py install --install-lib $INSTALL_DIR/lib/python --install-scripts $INSTALL_DIR/bin
                </action>
                <action type="set_environment">
                    <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
                    <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
                    <environment_variable action="set_to" name="PYTHONPATH_RPY">$INSTALL_DIR/lib/python</environment_variable>
                    <environment_variable action="set_to" name="PATH_RPY">$INSTALL_DIR/bin</environment_variable>
                </action>
            </actions>