Mercurial > repos > nturaga > package_minfi_1_16_0

comparison tool_dependencies.xml @ 16:a5c03de9ede7 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/nitesh1989/tools-iuc/tree/methylation/tool_collections/methylation_toolkit/minfi commit 4f055a2cf9a8ae7e9cc4d7982193c06df8df1fd1-dirty
author nturaga
date Wed, 20 Apr 2016 16:29:49 -0400
parents a207166bbeb2
children 3c5dd2c0ecf1
comparison
equal deleted inserted replaced
15:a207166bbeb2 16:a5c03de9ede7
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool_dependency> 2 <tool_dependency>
3 <package name="libcurl" version="7.35"> 3 <package name="libcurl" version="7.35">
4 <repository changeset_revision="0d934b13250c" name="package_libcurl_7_35" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> 4 <repository changeset_revision="f8230c44d76c" name="package_libcurl_7_35" owner="iuc" prior_installation_required="True" toolshed="http://gaius.bx.psu.edu:8008" />
5 </package> 5 </package>
6 <package name="R" version="3.2.1"> 6 <package name="R" version="3.2.1">
7 <repository changeset_revision="d0bf97420fb5" name="package_r_3_2_1" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> 7 <repository changeset_revision="7289a736da57" name="package_r_3_2_1" owner="iuc" prior_installation_required="True" toolshed="http://gaius.bx.psu.edu:8008" />
8 </package> 8 </package>
9 <package name="r-getopt" version="1.20.0"> 9 <package name="minfi" version="1.16.0">
10 <repository changeset_revision="712cb82311a8" name="package_r_3_2_1_getopt_1_20_0" owner="bebatut" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> 10 <install version="1.0">
11 </package> 11 <actions>
12 <package name="minfi" version="1.16.0"> 12 <action type="setup_r_environment">
13 <install version="1.0"> 13 <repository changeset_revision="f8230c44d76c" name="package_libcurl_7_35" owner="iuc" prior_installation_required="True" toolshed="http://gaius.bx.psu.edu:8008">
14 <actions> 14 <package name="libcurl" version="7.35" />
15 <action type="setup_r_environment"> 15 </repository>
16 <repository changeset_revision="0d934b13250c" name="package_libcurl_7_35" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu"> 16 <repository changeset_revision="7289a736da57" name="package_r_3_2_1" owner="iuc" toolshed="http://gaius.bx.psu.edu:8008">
17 <package name="libcurl" version="7.35" /> 17 <package name="R" version="3.2.1" />
18 </repository> 18 </repository>
19 <repository changeset_revision="d0bf97420fb5" name="package_r_3_2_1" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
20 <package name="R" version="3.2.1" />
21 </repository>
22 <package>https://bioconductor.org/packages/release/bioc/src/contrib/BiocGenerics_0.16.1.tar.gz</package> 19 <package>https://bioconductor.org/packages/release/bioc/src/contrib/BiocGenerics_0.16.1.tar.gz</package>
23 <package>https://bioarchive.galaxyproject.org/Biobase_2.29.1.tar.gz</package> 20 <package>https://bioarchive.galaxyproject.org/Biobase_2.29.1.tar.gz</package>
24 <package>http://bioconductor.org/packages/release/bioc/src/contrib/S4Vectors_0.8.11.tar.gz</package> 21 <package>http://bioconductor.org/packages/release/bioc/src/contrib/S4Vectors_0.8.11.tar.gz</package>
25 <package>http://bioconductor.org/packages/release/bioc/src/contrib/IRanges_2.4.8.tar.gz</package> 22 <package>http://bioconductor.org/packages/release/bioc/src/contrib/IRanges_2.4.8.tar.gz</package>
26 <package>https://bioarchive.galaxyproject.org/GenomeInfoDb_1.6.0.tar.gz</package> 23 <package>https://bioarchive.galaxyproject.org/GenomeInfoDb_1.6.0.tar.gz</package>
27 <package>https://bioarchive.galaxyproject.org/zlibbioc_1.16.0.tar.gz</package> 24 <package>https://bioarchive.galaxyproject.org/zlibbioc_1.16.0.tar.gz</package>
28 <package>https://bioarchive.galaxyproject.org/XVector_0.10.0.tar.gz</package> 25 <package>https://bioarchive.galaxyproject.org/XVector_0.10.0.tar.gz</package>
29 <package>https://bioconductor.org/packages/release/bioc/src/contrib/GenomicRanges_1.22.4.tar.gz</package> 26 <package>https://bioconductor.org/packages/release/bioc/src/contrib/GenomicRanges_1.22.4.tar.gz</package>
30 <package>https://bioarchive.galaxyproject.org/Biostrings_2.38.0.tar.gz</package> 27 <package>https://bioarchive.galaxyproject.org/Biostrings_2.38.0.tar.gz</package>
31 <package>https://cran.r-project.org/src/contrib/iterators_1.0.8.tar.gz</package> 28 <package>https://depot.galaxyproject.org/package/noarch/iterators_1.0.8.tar.gz</package>
32 <package>https://cran.r-project.org/src/contrib/foreach_1.4.3.tar.gz</package> 29 <package>https://depot.galaxyproject.org/package/noarch/foreach_1.4.3.tar.gz</package>
33 <package>https://cran.r-project.org/src/contrib/locfit_1.5-9.1.tar.gz</package> 30 <package>https://depot.galaxyproject.org/package/noarch/locfit_1.5-9.1.tar.gz</package>
34 <package>https://cran.r-project.org/src/contrib/Archive/matrixStats/matrixStats_0.14.2.tar.gz</package> 31 <package>https://depot.galaxyproject.org/package/noarch/matrixStats_0.14.2.tar.gz</package>
35 <package>https://bioarchive.galaxyproject.org/limma_3.26.0.tar.gz</package> 32 <package>https://bioarchive.galaxyproject.org/limma_3.26.0.tar.gz</package>
36 <package>https://cran.r-project.org/src/contrib/registry_0.3.tar.gz</package> 33 <package>https://depot.galaxyproject.org/package/noarch/registry_0.3.tar.gz</package>
37 <package>https://cran.r-project.org/src/contrib/digest_0.6.9.tar.gz</package> 34 <package>https://depot.galaxyproject.org/package/noarch/digest_0.6.9.tar.gz</package>
38 <package>https://cran.r-project.org/src/contrib/stringi_1.0-1.tar.gz</package> 35 <package>https://depot.galaxyproject.org/package/noarch/stringi_1.0-1.tar.gz</package>
39 <package>https://cran.r-project.org/src/contrib/magrittr_1.5.tar.gz</package> 36 <package>https://depot.galaxyproject.org/package/noarch/magrittr_1.5.tar.gz</package>
40 <package>https://cran.r-project.org/src/contrib/stringr_1.0.0.tar.gz</package> 37 <package>https://depot.galaxyproject.org/package/noarch/stringr_1.0.0.tar.gz</package>
41 <package>https://cran.r-project.org/src/contrib/Archive/xtable/xtable_1.7-4.tar.gz</package> 38 <package>https://depot.galaxyproject.org/package/noarch/xtable_1.7-4.tar.gz</package>
42 <package>https://cran.r-project.org/src/contrib/pkgmaker_0.22.tar.gz</package> 39 <package>https://depot.galaxyproject.org/package/noarch/pkgmaker_0.22.tar.gz</package>
43 <package>https://cran.r-project.org/src/contrib/rngtools_1.2.4.tar.gz</package> 40 <package>https://depot.galaxyproject.org/package/noarch/rngtools_1.2.4.tar.gz</package>
44 <package>https://cran.r-project.org/src/contrib/doRNG_1.6.tar.gz</package> 41 <package>https://depot.galaxyproject.org/package/noarch/doRNG_1.6.tar.gz</package>
45 <package>https://cran.r-project.org/src/contrib/DBI_0.3.1.tar.gz</package> 42 <package>https://depot.galaxyproject.org/package/noarch/DBI_0.3.1.tar.gz</package>
46 <package>https://cran.r-project.org/src/contrib/RSQLite_1.0.0.tar.gz</package> 43 <package>https://depot.galaxyproject.org/package/noarch/RSQLite_1.0.0.tar.gz</package>
47 <package>https://bioconductor.org/packages/release/bioc/src/contrib/AnnotationDbi_1.32.3.tar.gz</package> 44 <package>https://bioconductor.org/packages/release/bioc/src/contrib/AnnotationDbi_1.32.3.tar.gz</package>
48 <package>https://cran.r-project.org/src/contrib/bitops_1.0-6.tar.gz</package> 45 <package>https://depot.galaxyproject.org/package/noarch/bitops_1.0-6.tar.gz</package>
49 <package>https://cran.r-project.org/src/contrib/Archive/RCurl/RCurl_1.95-4.7.tar.gz</package> 46 <package>https://depot.galaxyproject.org/package/noarch/RCurl_1.95-4.7.tar.gz</package>
50 <package>https://cran.r-project.org/src/contrib/Archive/XML/XML_3.98-1.3.tar.gz</package> 47 <package>https://depot.galaxyproject.org/package/noarch/XML_3.98-1.3.tar.gz</package>
51 <package>https://cran.r-project.org/src/contrib/lambda.r_1.1.7.tar.gz</package> 48 <package>https://depot.galaxyproject.org/package/noarch/lambda.r_1.1.7.tar.gz</package>
52 <package>https://cran.r-project.org/src/contrib/futile.options_1.0.0.tar.gz</package> 49 <package>https://depot.galaxyproject.org/package/noarch/futile.options_1.0.0.tar.gz</package>
53 <package>https://cran.r-project.org/src/contrib/futile.logger_1.4.1.tar.gz</package> 50 <package>https://depot.galaxyproject.org/package/noarch/futile.logger_1.4.1.tar.gz</package>
54 <package>https://cran.r-project.org/src/contrib/Archive/snow/snow_0.3-13.tar.gz</package> 51 <package>https://depot.galaxyproject.org/package/noarch/snow_0.3-13.tar.gz</package>
55 <package>https://bioarchive.galaxyproject.org/BiocParallel_1.3.54.tar.gz</package> 52 <package>https://bioarchive.galaxyproject.org/BiocParallel_1.3.54.tar.gz</package>
56 <package>https://bioarchive.galaxyproject.org/Rsamtools_1.22.0.tar.gz</package> 53 <package>https://bioarchive.galaxyproject.org/Rsamtools_1.22.0.tar.gz</package>
57 <package>https://bioconductor.org/packages/release/bioc/src/contrib/SummarizedExperiment_1.0.2.tar.gz</package> 54 <package>https://bioconductor.org/packages/release/bioc/src/contrib/SummarizedExperiment_1.0.2.tar.gz</package>
58 <package>https://bioarchive.galaxyproject.org/GenomicAlignments_1.6.0.tar.gz</package> 55 <package>https://bioarchive.galaxyproject.org/GenomicAlignments_1.6.0.tar.gz</package>
59 <package>https://bioarchive.galaxyproject.org/rtracklayer_1.30.0.tar.gz</package> 56 <package>https://bioarchive.galaxyproject.org/rtracklayer_1.30.0.tar.gz</package>
60 <package>https://bioconductor.org/packages/release/bioc/src/contrib/biomaRt_2.26.1.tar.gz</package> 57 <package>https://bioconductor.org/packages/release/bioc/src/contrib/biomaRt_2.26.1.tar.gz</package>
61 <package>https://bioconductor.org/packages/release/bioc/src/contrib/GenomicFeatures_1.22.13.tar.gz</package> 58 <package>https://bioconductor.org/packages/release/bioc/src/contrib/GenomicFeatures_1.22.13.tar.gz</package>
62 <package>https://bioarchive.galaxyproject.org/bumphunter_1.10.0.tar.gz</package> 59 <package>https://bioarchive.galaxyproject.org/bumphunter_1.10.0.tar.gz</package>
63 <package>https://cran.r-project.org/src/contrib/beanplot_1.2.tar.gz</package> 60 <package>https://depot.galaxyproject.org/package/noarch/beanplot_1.2.tar.gz</package>
64 <package>https://cran.r-project.org/src/contrib/RColorBrewer_1.1-2.tar.gz</package> 61 <package>https://depot.galaxyproject.org/package/noarch/RColorBrewer_1.1-2.tar.gz</package>
65 <package>https://cran.r-project.org/src/contrib/nor1mix_1.2-1.tar.gz</package> 62 <package>https://depot.galaxyproject.org/package/noarch/nor1mix_1.2-1.tar.gz</package>
66 <package>http://bioconductor.org/packages/release/bioc/src/contrib/multtest_2.26.0.tar.gz</package> 63 <package>http://bioconductor.org/packages/release/bioc/src/contrib/multtest_2.26.0.tar.gz</package>
67 <package>https://www.bioconductor.org/packages/release/bioc/src/contrib/siggenes_1.44.0.tar.gz</package> 64 <package>https://www.bioconductor.org/packages/release/bioc/src/contrib/siggenes_1.44.0.tar.gz</package>
68 <package>http://bioconductor.org/packages/release/bioc/src/contrib/preprocessCore_1.32.0.tar.gz</package> 65 <package>http://bioconductor.org/packages/release/bioc/src/contrib/preprocessCore_1.32.0.tar.gz</package>
69 <package>https://cran.r-project.org/src/contrib/base64_1.1.tar.gz</package> 66 <package>https://depot.galaxyproject.org/package/noarch/base64_1.1.tar.gz</package>
70 <package>http://bioconductor.org/packages/release/bioc/src/contrib/illuminaio_0.12.0.tar.gz</package> 67 <package>http://bioconductor.org/packages/release/bioc/src/contrib/illuminaio_0.12.0.tar.gz</package>
71 <package>https://cran.r-project.org/src/contrib/Archive/mclust/mclust_5.0.2.tar.gz</package> 68 <package>https://depot.galaxyproject.org/package/noarch/mclust_5.0.2.tar.gz</package>
72 <package>https://bioarchive.galaxyproject.org/annotate_1.48.0.tar.gz</package> 69 <package>https://bioarchive.galaxyproject.org/annotate_1.48.0.tar.gz</package>
73 <package>http://bioconductor.org/packages/release/bioc/src/contrib/genefilter_1.52.1.tar.gz</package> 70 <package>http://bioconductor.org/packages/release/bioc/src/contrib/genefilter_1.52.1.tar.gz</package>
74 <package>https://cran.r-project.org/src/contrib/Archive/Rcpp/Rcpp_0.12.1.tar.gz</package> 71 <package>https://depot.galaxyproject.org/package/noarch/Rcpp_0.12.1.tar.gz</package>
75 <package>https://cran.r-project.org/src/contrib/plyr_1.8.3.tar.gz</package> 72 <package>https://depot.galaxyproject.org/package/noarch/plyr_1.8.3.tar.gz</package>
76 <package>https://cran.r-project.org/src/contrib/reshape_0.8.5.tar.gz</package> 73 <package>https://depot.galaxyproject.org/package/noarch/reshape_0.8.5.tar.gz</package>
77 <package>https://cran.r-project.org/src/contrib/quadprog_1.5-5.tar.gz</package> 74 <package>https://depot.galaxyproject.org/package/noarch/quadprog_1.5-5.tar.gz</package>
78 <package>https://bioarchive.galaxyproject.org/GEOquery_2.35.7.tar.gz</package> 75 <package>https://bioarchive.galaxyproject.org/GEOquery_2.35.7.tar.gz</package>
79 <package>https://cran.r-project.org/src/contrib/colorspace_1.2-6.tar.gz</package> 76 <package>https://depot.galaxyproject.org/package/noarch/colorspace_1.2-6.tar.gz</package>
80 <package>https://cran.r-project.org/src/contrib/dichromat_2.0-0.tar.gz</package> 77 <package>https://depot.galaxyproject.org/package/noarch/dichromat_2.0-0.tar.gz</package>
81 <package>https://cran.r-project.org/src/contrib/labeling_0.3.tar.gz</package> 78 <package>https://depot.galaxyproject.org/package/noarch/labeling_0.3.tar.gz</package>
82 <package>https://cran.r-project.org/src/contrib/munsell_0.4.3.tar.gz</package> 79 <package>https://depot.galaxyproject.org/package/noarch/munsell_0.4.3.tar.gz</package>
83 <package>https://cran.r-project.org/src/contrib/reshape2_1.4.1.tar.gz</package> 80 <package>https://depot.galaxyproject.org/package/noarch/reshape2_1.4.1.tar.gz</package>
84 <package>https://cran.r-project.org/src/contrib/gtable_0.2.0.tar.gz</package> 81 <package>https://depot.galaxyproject.org/package/noarch/gtable_0.2.0.tar.gz</package>
85 <package>https://cran.r-project.org/src/contrib/scales_0.4.0.tar.gz</package> 82 <package>https://depot.galaxyproject.org/package/noarch/scales_0.4.0.tar.gz</package>
86 <package>https://cran.r-project.org/src/contrib/ggplot2_2.1.0.tar.gz</package> 83 <package>https://depot.galaxyproject.org/package/noarch/ggplot2_2.1.0.tar.gz</package>
87 <package>https://cran.r-project.org/src/contrib/rgl_0.95.1441.tar.gz</package> 84 <package>https://depot.galaxyproject.org/package/noarch/rgl_0.95.1441.tar.gz</package>
88 <package>https://cran.r-project.org/src/contrib/ellipse_0.3-8.tar.gz</package> 85 <package>https://depot.galaxyproject.org/package/noarch/ellipse_0.3-8.tar.gz</package>
89 <package>https://cran.r-project.org/src/contrib/corpcor_1.6.8.tar.gz</package> 86 <package>https://depot.galaxyproject.org/package/noarch/corpcor_1.6.8.tar.gz</package>
90 <package>https://cran.r-project.org/src/contrib/cluster_2.0.4.tar.gz</package> 87 <package>https://depot.galaxyproject.org/package/noarch/cluster_2.0.4.tar.gz</package>
91 <package>https://cran.r-project.org/src/contrib/gridBase_0.4-7.tar.gz</package> 88 <package>https://depot.galaxyproject.org/package/noarch/gridBase_0.4-7.tar.gz</package>
92 <package>https://cran.r-project.org/src/contrib/doParallel_1.0.10.tar.gz</package> 89 <package>https://depot.galaxyproject.org/package/noarch/doParallel_1.0.10.tar.gz</package>
93 <package>https://cran.r-project.org/src/contrib/NMF_0.20.6.tar.gz</package> 90 <package>https://depot.galaxyproject.org/package/noarch/NMF_0.20.6.tar.gz</package>
94 <package>https://cran.r-project.org/src/contrib/irlba_2.0.0.tar.gz</package> 91 <package>https://depot.galaxyproject.org/package/noarch/irlba_2.0.0.tar.gz</package>
95 <package>https://cran.r-project.org/src/contrib/igraph_1.0.1.tar.gz</package> 92 <package>https://depot.galaxyproject.org/package/noarch/igraph_1.0.1.tar.gz</package>
96 <package>https://cran.r-project.org/src/contrib/mixOmics_5.2.0.tar.gz</package> 93 <package>https://depot.galaxyproject.org/package/noarch/mixOmics_5.2.0.tar.gz</package>
97 <package>https://bioarchive.galaxyproject.org/minfi_1.16.0.tar.gz</package> 94 <package>https://bioarchive.galaxyproject.org/minfi_1.16.0.tar.gz</package>
98 <package>https://cran.r-project.org/src/contrib/getopt_1.20.0.tar.gz</package> 95 <package>https://depot.galaxyproject.org/package/noarch/getopt_1.20.0.tar.gz</package>
99 <package>https://bioconductor.org/packages/release/data/experiment/src/contrib/FlowSorted.Blood.450k_1.8.0.tar.gz</package> 96 <package>https://bioconductor.org/packages/release/data/experiment/src/contrib/FlowSorted.Blood.450k_1.8.0.tar.gz</package>
100 </action> 97 </action>
101 </actions> 98 </actions>
102 </install> 99 </install>
103 <readme /> 100 <readme>
104 </package> 101 </readme>
102 </package>
105 </tool_dependency> 103 </tool_dependency>