comparison tool_dependencies.xml @ 34:934b9fccabd4 draft

Uploaded

33:fc3830717e24

             </actions>
         </install>
         <readme>The tools downloaded by this dependency definition are free for academic use. TODO: UCSC tools are only available with their latest version. That is not good for reproducibility.</readme>
     </package>

    <package name="deepTools" version="1.5.4_eabc1c3842f4b6367fb41904061a3b95c9a0ce0c">
        <install version="1.0">
            <actions>
                <action type="shell_command">git clone --recursive https://github.com/fidelram/deepTools.git</action>
                <!-- populate the environment variables from the dependend repos -->
                <action type="set_environment_for_install">

                    </repository>
                    <repository changeset_revision="4b2ef8519550" name="package_scipy_0_12" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu">
                        <package name="scipy" version="0.12.0" />
                    </repository>
                </action>
                <action type="shell_command">git reset --hard eabc1c3842f4b6367fb41904061a3b95c9a0ce0c</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>

34:934b9fccabd4

             </actions>
         </install>
         <readme>The tools downloaded by this dependency definition are free for academic use. TODO: UCSC tools are only available with their latest version. That is not good for reproducibility.</readme>
     </package>

    <package name="deepTools" version="1.5.4_570648e1d7a44583a72852f2bd2bf408f76f8f6a">
        <install version="1.0">
            <actions>
                <action type="shell_command">git clone --recursive https://github.com/fidelram/deepTools.git</action>
                <!-- populate the environment variables from the dependend repos -->
                <action type="set_environment_for_install">

                    </repository>
                    <repository changeset_revision="4b2ef8519550" name="package_scipy_0_12" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu">
                        <package name="scipy" version="0.12.0" />
                    </repository>
                </action>
                <action type="shell_command">git reset --hard 570648e1d7a44583a72852f2bd2bf408f76f8f6a</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>