# HG changeset patch
# User devteam
# Date 1420664308 18000
# Node ID d9d166e54a21fd3c2a058416df67810fa4cde651
# Parent  271dd1fcbb47ab73bb4961c309d711eb6466ffbd
Download all R libraries from depot.galaxyproject.org

diff -r 271dd1fcbb47 -r d9d166e54a21 tool_dependencies.xml
--- a/tool_dependencies.xml	Wed Jan 07 15:36:21 2015 -0500
+++ b/tool_dependencies.xml	Wed Jan 07 15:58:28 2015 -0500
@@ -10,70 +10,70 @@
                     <repository changeset_revision="7cb487a32bde" name="package_r_3_1_2" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
                         <package name="R" version="3.1.2" />
                     </repository>
-                    <package>http://cran.r-project.org/src/contrib/DBI_0.3.1.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/bitops_1.0-6.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/RCurl_1.95-4.5.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/XML_3.98-1.1.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/RSQLite_1.0.0.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/DBI_0.3.1.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/bitops_1.0-6.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/RCurl_1.95-4.5.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/XML_3.98-1.1.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/RSQLite_1.0.0.tar.gz</package>
                     <package>https://depot.galaxyproject.org/package/noarch/digest_0.6.7.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/Rcpp_0.11.3.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/plyr_1.8.1.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/gtable_0.1.2.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/proto_0.3-10.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/stringr_0.6.2.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/reshape2_1.4.1.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/RColorBrewer_1.1-2.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/dichromat_2.0-0.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/labeling_0.3.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/colorspace_1.2-4.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/munsell_0.4.2.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/scales_0.2.4.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/ggplot2_1.0.0.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/fastcluster_1.1.13.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/plyr_1.8.1.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/getopt_1.20.0.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/rjson_0.2.15.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/findpython_1.0.1.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/argparse_1.0.1.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/lattice_0.20-29.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/latticeExtra_0.6-26.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/checkmate_1.5.1.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/BBmisc_1.8.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/brew_1.0-6.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/fail_1.2.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/base64enc_0.1-2.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/sendmailR_1.2-1.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/BatchJobs_1.5.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/iterators_1.0.7.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/codetools_0.2-9.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/foreach_1.4.2.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/Formula_1.1-2.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/survival_2.37-7.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/acepack_1.3-3.3.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/Hmisc_3.14-6.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/R.methodsS3_1.6.1.tar.gz</package>
-                    <package>http://cran.r-project.org/src/contrib/matrixStats_0.12.2.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/BiocGenerics_0.12.1.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/S4Vectors_0.4.0.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/IRanges_2.0.1.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/GenomeInfoDb_1.2.4.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/XVector_0.6.0.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/GenomicRanges_1.18.3.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/zlibbioc_1.12.0.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/Biostrings_2.34.1.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/Rsamtools_1.18.2.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/BiocParallel_1.0.0.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/Biobase_2.26.0.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/AnnotationDbi_1.28.1.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/biomaRt_2.22.0.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/GenomicAlignments_1.2.1.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/rtracklayer_1.26.2.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/BSgenome_1.34.0.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/GenomicFeatures_1.18.3.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/VariantAnnotation_1.12.7.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/biovizBase_1.14.1.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/Gviz_1.10.3.tar.gz</package>
-                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/cummeRbund_2.8.2.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/Rcpp_0.11.3.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/plyr_1.8.1.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/gtable_0.1.2.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/proto_0.3-10.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/stringr_0.6.2.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/reshape2_1.4.1.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/RColorBrewer_1.1-2.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/dichromat_2.0-0.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/labeling_0.3.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/colorspace_1.2-4.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/munsell_0.4.2.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/scales_0.2.4.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/ggplot2_1.0.0.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/fastcluster_1.1.13.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/plyr_1.8.1.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/getopt_1.20.0.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/rjson_0.2.15.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/findpython_1.0.1.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/argparse_1.0.1.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/lattice_0.20-29.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/latticeExtra_0.6-26.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/checkmate_1.5.1.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/BBmisc_1.8.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/brew_1.0-6.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/fail_1.2.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/base64enc_0.1-2.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/sendmailR_1.2-1.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/BatchJobs_1.5.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/iterators_1.0.7.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/codetools_0.2-9.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/foreach_1.4.2.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/Formula_1.1-2.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/survival_2.37-7.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/acepack_1.3-3.3.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/Hmisc_3.14-6.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/R.methodsS3_1.6.1.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/matrixStats_0.12.2.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/BiocGenerics_0.12.1.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/S4Vectors_0.4.0.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/IRanges_2.0.1.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/GenomeInfoDb_1.2.4.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/XVector_0.6.0.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/GenomicRanges_1.18.3.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/zlibbioc_1.12.0.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/Biostrings_2.34.1.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/Rsamtools_1.18.2.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/BiocParallel_1.0.0.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/Biobase_2.26.0.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/AnnotationDbi_1.28.1.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/biomaRt_2.22.0.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/GenomicAlignments_1.2.1.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/rtracklayer_1.26.2.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/BSgenome_1.34.0.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/GenomicFeatures_1.18.3.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/VariantAnnotation_1.12.7.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/biovizBase_1.14.1.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/Gviz_1.10.3.tar.gz</package>
+                    <package>https://depot.galaxyproject.org/package/noarch/cummeRbund_2.8.2.tar.gz</package>
                 </action>
             </actions>
         </install>