view tool_dependencies.xml @ 4:abd431ea5ce0 draft

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<?xml version="1.0"?>
<tool_dependency>
    <package name="atlas" version="3.10.1">
        <repository changeset_revision="25dc49b0d6d5" name="package_atlas_3_10" owner="bgruening" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
    </package>
    <package name="readline" version="6.2">
        <repository changeset_revision="b936498ae90c" name="package_readline_6_2" owner="bgruening" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
    </package>

    <package name="R_3_0_1" version="3.0.1">
        <install version="1.0">
            <actions>
                <action type="download_by_url">http://cran.ms.unimelb.edu.au/src/base/R-3/R-3.0.1.tar.gz</action>
                <action type="set_environment_for_install">
                    <repository changeset_revision="25dc49b0d6d5" name="package_atlas_3_10" owner="bgruening" toolshed="http://testtoolshed.g2.bx.psu.edu">
                        <package name="atlas" version="3.10.1" />
                    </repository>
                    <repository changeset_revision="b936498ae90c" name="package_readline_6_2" owner="bgruening" toolshed="http://testtoolshed.g2.bx.psu.edu">
                        <package name="readline" version="6.2" />
                    </repository>
                </action>

                <action language="cheetah" type="template_command">
                    #if env.get('READLINE_LIB_PATH', False):
                        export LDFLAGS=-L$env.READLINE_LIB_PATH &amp;&amp; 
                        export CPPFLAGS=-I$env.READLINE_INCLUDE_PATH &amp;&amp; 
                    #end if

                    #set $cmd = './configure'
                    #if env.get('ATLAS_LIB_DIR', False):
                        #set $cmd += ' --with-blas="-L%s -lptf77blas -lpthread -latlas" ' % $env.ATLAS_LIB_DIR
                    #end if

                    #set $cmd += ' --enable-R-shlib  --with-x=no --with-readline=yes --prefix=%s ' % $env.INSTALL_DIR
                    $cmd
                </action>
                <action type="shell_command">make</action>
                <action type="shell_command">make install</action>
                <action type="set_environment">
                    <environment_variable action="set_to" name="R_HOME">$INSTALL_DIR/lib/R</environment_variable>
                    <environment_variable action="set_to" name="R_LIBS">$INSTALL_DIR/lib/R/library</environment_variable>
                    <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/lib/R/bin</environment_variable>
                    <environment_variable action="append_to" name="LD_LIBRARY_PATH">$INSTALL_DIR/lib/R/lib</environment_variable>
                </action>
            </actions>
        </install>
        <readme>R is a free software environment for statistical computing and graphics. http://www.r-project.org/</readme>
    </package>
</tool_dependency>