view tool_dependencies.xml @ 1:110f8e93a946 draft

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<?xml version="1.0"?>
<tool_dependency>
    <package name="R" version="3.1.2">
        <repository toolshed="https://testtoolshed.g2.bx.psu.edu/" name="brenninc_r_sept32105" owner="brenninc" changeset_revision="3ab867976871" prior_installation_required="True" />
    </package>
    <package name="R_extend_level_one" version="0.0.1">
        <install version="1.0">
            <actions>
                <action type="setup_r_environment">
                    <repository changeset_revision="3ab867976871" name="brenninc_r_sept32105" owner="brenninc" toolshed="https://testtoolshed.g2.bx.psu.edu/">
                        <package name="R" version="3.1.2" />
                        <!-- includes base, boot, 
                                      class, cluster, codetools, compiler, 
                                      datasets, 
                                      foreign, 
                                      graphics, grDevices, grid, 
                                      KernSmooth, 
                                      lattice, 
                                      MASS, Matrix, methods, mgcv, 
                                      nlme, nnet, 
                                      parallel, 
                                      rpart,
                                      spatial, splines, stats, stats4, survival,
                                      tcltk, tools,
                                      utils-->

                    </repository>  
                    <!--No dependencies Not on https://bioarchive.galaxyproject.org -->
                    <package>https://cran.r-project.org/src/contrib/acepack_1.3-3.3.tar.gz</package> 
                    <package>https://cran.r-project.org/src/contrib/colorspace_1.2-6.tar.gz</package> 
                        <!-- Imports graphics 
                             Suggests: KernSmooth, MASS, kernlab, mvtnorm, vcd, dichromat, tcltk-->
                    <package>https://cran.r-project.org/src/contrib/digest_0.6.8.tar.gz</package> 
                    <package>https://cran.r-project.org/src/contrib/dichromat_2.0-0.tar.gz</package> 
                        <!-- Depends stats -->
                    <package>https://cran.r-project.org/src/contrib/Formula_1.2-1.tar.gz</package> 
                        <!-- Depends stats -->
                    <package>https://cran.r-project.org/src/contrib/gtable_0.1.2.tar.gz</package> 
                        <!-- Depends grid 
                             Suggests: testthat, plyr-->
                    <package>https://cran.r-project.org/src/contrib/labeling_0.3.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/magrittr_1.5.tar.gz</package>
                        <!-- Suggests: 	testthat, knitr -->
                    <package>https://cran.r-project.org/src/contrib/proto_0.3-10.tar.gz</package>
                        <!-- Suggests: 	graph, Rgraphviz -->
                    <package>https://cran.r-project.org/src/contrib/Rcpp_0.12.0.tar.gz</package>
                        <!-- Imports: 	methods, utils
                             Suggests: 	RUnit, inline, rbenchmark, highlight, pkgKitten (≥ 0.1.2) -->
                    <package>https://cran.r-project.org/src/contrib/RColorBrewer_1.1-2.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/rjson_0.2.15.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/snow_0.3-13.tar.gz</package>
                        <!-- Depends: R (≥ 2.12.1), utils
                             Suggests: Rmpi, rpvm, rlecuyer, rsprng, nws -->
                    <package>https://cran.r-project.org/src/contrib/SparseM_1.7.tar.gz</package>
                        <!-- Depends: R (≥ 2.15), methods
                             Imports: graphics, stats, utils -->
                    <package>https://cran.r-project.org/src/contrib/stringi_0.5-5.tar.gz</package>
                        <!-- Depends: R (≥ 2.13.1)
                             Imports: tools, utils, stats -->
                    <package>https://cran.r-project.org/src/contrib/XML_3.98-1.3.tar.gz</package>
                        <!-- Depends: R (≥ 2.13.0), methods, utils
                             Suggests: bitops, RCurl -->
                    <package>https://cran.r-project.org/src/contrib/xtable_1.7-4.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/stringr_1.0.0.tar.gz</package>
                        <!-- Depends: R (≥ 2.14)
                             Imports: stringi (≥ 0.4.1), magrittr
                             Suggests: testthat, knitr -->
                </action>            
            </actions>
        </install>
    </package>
</tool_dependency>