Mercurial > repos > testtool > 450kdependency

view tool_dependencies.xml @ 110:a4f3ee6f239f draft

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author testtool
date Tue, 09 May 2017 07:28:57 -0400
parents bf6cee5430b8
children 3070d8381a55
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<?xml version="1.0"?>
<tool_dependency>
    <package name="libcurl" version="7.35">
        <repository changeset_revision="0d934b13250c" name="package_libcurl_7_35" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
    </package>
    <package name="R" version="3.2.1">
        <repository changeset_revision="d0bf97420fb5" name="package_r_3_2_1" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
    </package>
<package name="450kdependency" version="0.0.1">
        <install version="1.0">
          <actions>
              <action type="setup_r_environment">
                  <repository changeset_revision="0d934b13250c" name="package_libcurl_7_35" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu">
                      <package name="libcurl" version="7.35" />
                  </repository>
                  <repository changeset_revision="d0bf97420fb5" name="package_r_3_2_1" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
                      <package name="R" version="3.2.1" />
                    </repository>
                    <action type="shell_command">
                      sudo apt-get install xorg </action>
                    <action type="shell_command">
                      sudo apt-get install libx11-dev </action>
                      <action type="shell_command">
                      sudo apt-get install r-cran-rgl </action>
                    <package>http://bioconductor.org/packages/3.2/bioc/src/contrib/BiocGenerics_0.16.1.tar.gz</package>
                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/Biobase_2.36.1.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/iterators_1.0.8.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/foreach_1.4.3.tar.gz</package>
                    <package>https://cran.rstudio.com/src/contrib/locfit_1.5-9.1.tar.gz</package>
                    <package>https://cran.rstudio.com/src/contrib/matrixStats_0.52.2.tar.gz</package>
                    <package>http://bioconductor.org/packages/release/bioc/src/contrib/limma_3.32.2.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/registry_0.3.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/digest_0.6.12.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/stringi_1.1.5.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/magrittr_1.5.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/stringr_1.2.0.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/xtable_1.8-2.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/pkgmaker_0.22.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/rngtools_1.2.4.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/doRNG_1.6.6.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/DBI_0.6-1.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/memoise_1.1.0.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Rcpp_0.12.10.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/BH_1.62.0-1.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/plogr_0.1-1.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/RSQLite_1.1-2.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/bitops_1.0-6.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/RCurl/RCurl_1.95-4.5.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/XML/XML_3.98-1.2.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/lambda.r_1.1.9.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/futile.options_1.0.0.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/futile.logger_1.4.3.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/snow_0.4-2.tar.gz</package>
                    <package>http://bioconductor.org/packages/release/bioc/src/contrib/BiocParallel_1.10.1.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/lattice_0.20-35.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/openssl_0.9.6.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/base64_2.0.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/quadprog_1.5-5.tar.gz</package>
                    <package>http://bioconductor.org/packages/release/bioc/src/contrib/multtest_2.32.0.tar.gz</package>
                    <package>http://bioconductor.org/packages/release/bioc/src/contrib/siggenes_1.50.0.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Matrix_1.2-10.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/R6_2.2.0.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/nlme_3.1-131.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/RColorBrewer_1.1-2.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/nor1mix_1.2-2.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/data.table_1.10.4.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/mclust_5.2.3.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/survival_2.41-3.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/plyr_1.8.4.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/codetools_0.2-15.tar.gz</package>
                    <package>http://bioconductor.org/packages/release/bioc/src/contrib/illuminaio_0.18.0.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/jsonlite_1.4.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/mime_0.5.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/curl_2.6.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/httr_1.2.1.tar.gz</package>
                    <package>ftp://164.41.45.6/pub/plan/R/src/contrib/beanplot_1.2.tar.gz</package>
                    <package>http://bioconductor.org/packages/release/bioc/src/contrib/preprocessCore_1.38.0.tar.gz</package>
                    <package>http://bioconductor.org/packages/release/bioc/src/contrib/GEOquery_2.42.0.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/MASS_7.3-47.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/reshape_0.8.6.tar.gz</package>
                    <package>http://bioconductor.org/packages/3.2/bioc/src/contrib/S4Vectors_0.8.11.tar.gz</package>
                    <package>http://bioconductor.org/packages/3.2/bioc/src/contrib/IRanges_2.4.8.tar.gz</package>
                    <package>http://bioconductor.org/packages/3.2/bioc/src/contrib/GenomeInfoDb_1.6.3.tar.gz</package>
                    <package>http://bioconductor.org/packages/3.2/bioc/src/contrib/AnnotationDbi_1.32.3.tar.gz</package>
                    <package>http://bioconductor.org/packages/3.2/bioc/src/contrib/annotate_1.48.0.tar.gz</package>
                    <package>http://bioconductor.org/packages/3.2/bioc/src/contrib/genefilter_1.52.1.tar.gz</package>
                    <package>http://bioconductor.org/packages/3.2/bioc/src/contrib/zlibbioc_1.16.0.tar.gz</package>
                    <package>http://bioconductor.org/packages/3.2/bioc/src/contrib/XVector_0.10.0.tar.gz</package>
                    <package>http://bioconductor.org/packages/3.2/bioc/src/contrib/Biostrings_2.38.4.tar.gz</package>
                    <package>http://bioconductor.org/packages/3.2/bioc/src/contrib/GenomicRanges_1.22.4.tar.gz</package>
                    <package>http://bioconductor.org/packages/3.2/bioc/src/contrib/Rsamtools_1.22.0.tar.gz</package>
                    <package>http://bioconductor.org/packages/3.2/bioc/src/contrib/SummarizedExperiment_1.0.2.tar.gz</package>
                    <package>http://bioconductor.org/packages/3.2/bioc/src/contrib/GenomicAlignments_1.6.3.tar.gz</package>
                    <package>http://bioconductor.org/packages/3.2/bioc/src/contrib/rtracklayer_1.30.4.tar.gz</package>
                    <package>http://bioconductor.org/packages/3.2/bioc/src/contrib/biomaRt_2.26.1.tar.gz</package>
                    <package>http://bioconductor.org/packages/3.2/bioc/src/contrib/GenomicFeatures_1.22.13.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/lattice_0.20-35.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/irlba/irlba_1.0.3.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/htmltools/htmltools_0.2.6.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/RJSONIO/RJSONIO_1.2-0.2.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/yaml/yaml_2.1.12.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/htmlwidgets/htmlwidgets_0.3.2.tar.gz</package>
                    <package>https://cran.rstudio.com/src/contrib/Archive/evaluate/evaluate_0.5.5.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/formatR/formatR_1.0.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/highr/highr_0.4.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/markdown/markdown_0.6.5.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/knitr/knitr_1.8.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/httpuv/httpuv_1.2.2.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/shiny/shiny_0.10.2.tar.gz</package>
                    <package>https://cran.rstudio.com/src/contrib/ellipse_0.3-8.tar.gz</package>
                    <package>https://cran.rstudio.com/src/contrib/corpcor_1.6.9.tar.gz</package>
                    <package>https://cran.rstudio.com/src/contrib/RColorBrewer_1.1-2.tar.gz</package>
                    <package>https://cran.rstudio.com/src/contrib/plyr_1.8.4.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/assertthat_0.2.0.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/lazyeval_0.2.0.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/tibble_1.3.0.tar.gz</package>
                    <package>https://cran.rstudio.com/src/contrib/dplyr_0.5.0.tar.gz</package>
                    <package>https://cran.rstudio.com/src/contrib/tidyr_0.6.2.tar.gz</package>
                    <package>https://cran.rstudio.com/src/contrib/reshape2_1.4.2.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/proto/proto_0.3-10.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/dichromat_2.0-0.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/labeling_0.3.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/gtable_0.2.0.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/doParallel/doParallel_1.0.8.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/colorspace/colorspace_1.2-4.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/munsell/munsell_0.4.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/scales/scales_0.2.4.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/gridBase_0.4-7.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/ggplot2/ggplot2_1.0.0.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/NMF/NMF_0.20.5.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/png_0.1-7.tar.gz</package>
                    <package>https://cran.rstudio.com/src/contrib/igraph_1.0.1.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/whisker_0.3-2.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/rstudioapi/rstudioapi_0.2.tar.gz</package>
                    <package>https://cran.r-project.org/src/contrib/Archive/devtools/devtools_1.6.tar.gz</package>
                    <package>https://cran.rstudio.com/src/contrib/mixOmics_6.1.2.tar.gz</package>
                    <package>http://bioconductor.org/packages/3.2/bioc/src/contrib/bumphunter_1.10.0.tar.gz</package>
                    <package>http://bioconductor.org/packages/3.2/bioc/src/contrib/minfi_1.16.1.tar.gz</package>
                  </action>
              </actions>
              </install>
              <readme>
              </readme>
              </package>
              </tool_dependency>