| Previous changeset 22:3381429d7391 (2017-04-12) Next changeset 24:f5d862854788 (2017-04-13) |
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modified:
GRsetFromGEO/tool_dependencies.xml |
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| diff -r 3381429d7391 -r 336772e963f2 GRsetFromGEO/tool_dependencies.xml --- a/GRsetFromGEO/tool_dependencies.xml Wed Apr 12 13:39:07 2017 -0400 +++ b/GRsetFromGEO/tool_dependencies.xml Thu Apr 13 08:00:02 2017 -0400 |
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| b'@@ -1,9 +1,103 @@\n <?xml version="1.0"?>\n <tool_dependency>\n- <package name="minfi" version="1.16.0">\n- <repository changeset_revision="d0cee75b3e2e" name="package_minfi_1_16_0" owner="nturaga" toolshed="https://toolshed.g2.bx.psu.edu" />\n+ <package name="libcurl" version="7.35">\n+ <repository changeset_revision="0d934b13250c" name="package_libcurl_7_35" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />\n </package>\n <package name="R" version="3.2.1">\n- <repository changeset_revision="d0bf97420fb5" name="package_r_3_2_1" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />\n+ <repository changeset_revision="d0bf97420fb5" name="package_r_3_2_1" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />\n+ </package>\n+ <package name="minfi" version="1.20.2">\n+ <install version="1.0">\n+ <actions>\n+ <action type="setup_r_environment">\n+ <repository changeset_revision="0d934b13250c" name="package_libcurl_7_35" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu">\n+ <package name="libcurl" version="7.35" />\n+ </repository>\n+ <repository changeset_revision="d0bf97420fb5" name="package_r_3_2_1" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">\n+ <package name="R" version="3.2.1" />\n+ </repository>\n+ <package>http://bioconductor.org/packages/release/bioc/src/contrib/minfi_1.20.2.tar.gz</package>\n+ <package>https://bioarchive.galaxyproject.org/Biobase_2.29.1.tar.gz</package>\n+ <package>http://bioconductor.org/packages/release/bioc/src/contrib/S4Vectors_0.8.11.tar.gz</package>\n+ <package>http://bioconductor.org/packages/release/bioc/src/contrib/IRanges_2.4.8.tar.gz</package>\n+ <package>https://bioarchive.galaxyproject.org/GenomeInfoDb_1.6.0.tar.gz</package>\n+ <package>https://bioarchive.galaxyproject.org/zlibbioc_1.16.0.tar.gz</package>\n+ <package>https://bioarchive.galaxyproject.org/XVector_0.10.0.tar.gz</package>\n+ <package>https://bioconductor.org/packages/release/bioc/src/contrib/GenomicRanges_1.22.4.tar.gz</package>\n+ <package>https://bioarchive.galaxyproject.org/Biostrings_2.38.0.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/iterators_1.0.8.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/foreach_1.4.3.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/locfit_1.5-9.1.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/matrixStats_0.14.2.tar.gz</package>\n+ <package>https://bioarchive.galaxyproject.org/limma_3.26.0.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/registry_0.3.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/digest_0.6.9.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/stringi_1.0-1.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/magrittr_1.5.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/stringr_1.0.0.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/xtable_1.7-4.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/pkgmaker_0.22.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/rngtools_1.2.4.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/doRNG_'..b' <package>https://depot.galaxyproject.org/package/noarch/nor1mix_1.2-1.tar.gz</package>\n+ <package>http://bioconductor.org/packages/release/bioc/src/contrib/multtest_2.26.0.tar.gz</package>\n+ <package>https://www.bioconductor.org/packages/release/bioc/src/contrib/siggenes_1.44.0.tar.gz</package>\n+ <package>http://bioconductor.org/packages/release/bioc/src/contrib/preprocessCore_1.32.0.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/base64_1.1.tar.gz</package>\n+ <package>http://bioconductor.org/packages/release/bioc/src/contrib/illuminaio_0.12.0.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/mclust_5.0.2.tar.gz</package>\n+ <package>https://bioarchive.galaxyproject.org/annotate_1.48.0.tar.gz</package>\n+ <package>http://bioconductor.org/packages/release/bioc/src/contrib/genefilter_1.52.1.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/Rcpp_0.12.1.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/plyr_1.8.3.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/reshape_0.8.5.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/quadprog_1.5-5.tar.gz</package>\n+ <package>https://bioarchive.galaxyproject.org/GEOquery_2.35.7.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/colorspace_1.2-6.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/dichromat_2.0-0.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/labeling_0.3.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/munsell_0.4.3.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/reshape2_1.4.1.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/gtable_0.2.0.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/scales_0.4.0.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/ggplot2_2.1.0.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/rgl_0.95.1441.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/ellipse_0.3-8.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/corpcor_1.6.8.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/cluster_2.0.4.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/gridBase_0.4-7.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/doParallel_1.0.10.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/NMF_0.20.6.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/irlba_2.0.0.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/igraph_1.0.1.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/mixOmics_5.2.0.tar.gz</package>\n+ <package>https://bioarchive.galaxyproject.org/minfi_1.16.0.tar.gz</package>\n+ <package>https://depot.galaxyproject.org/package/noarch/getopt_1.20.0.tar.gz</package>\n+ <package>https://bioconductor.org/packages/release/data/experiment/src/contrib/FlowSorted.Blood.450k_1.8.0.tar.gz</package>\n+ </action>\n+ </actions>\n+ </install>\n+ <readme>\n+ </readme>\n </package>\n </tool_dependency>\n' |