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annotate tool_dependencies.xml @ 4:13c270433440 draft

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author iuc
date Thu, 04 Jun 2015 10:10:58 -0400
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5aacc6d160ed Uploaded tool dependency definition.
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1 <?xml version="1.0"?>
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2 <tool_dependency>
3
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3 <package name="libcurl" version="7.35">
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4 <repository changeset_revision="8fe20c4f5aff" name="package_libcurl_7_35" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
f18bcdb8c6c5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_cummerbund_2_8_2 commit f6a91dff96780be542371e30270e23f8aac65770
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5 </package>
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6 <package name="R" version="3.1.2">
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f18bcdb8c6c5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_cummerbund_2_8_2 commit f6a91dff96780be542371e30270e23f8aac65770
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7 <repository changeset_revision="6e0eee4ea4e1" name="package_r_3_1_2" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
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8 </package>
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9 <package name="cummeRbund" version="2.8.2">
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10 <install version="1.0">
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11 <actions>
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12 <action type="setup_r_environment">
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13 <repository changeset_revision="8fe20c4f5aff" name="package_libcurl_7_35" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu">
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14 <package name="libcurl" version="7.35" />
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15 </repository>
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f18bcdb8c6c5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_cummerbund_2_8_2 commit f6a91dff96780be542371e30270e23f8aac65770
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16 <repository changeset_revision="6e0eee4ea4e1" name="package_r_3_1_2" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
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5aacc6d160ed Uploaded tool dependency definition.
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17 <package name="R" version="3.1.2" />
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18 </repository>
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d9d166e54a21 Download all R libraries from depot.galaxyproject.org
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19 <package>https://depot.galaxyproject.org/package/noarch/DBI_0.3.1.tar.gz</package>
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20 <package>https://depot.galaxyproject.org/package/noarch/bitops_1.0-6.tar.gz</package>
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21 <package>https://depot.galaxyproject.org/package/noarch/RCurl_1.95-4.5.tar.gz</package>
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22 <package>https://depot.galaxyproject.org/package/noarch/XML_3.98-1.1.tar.gz</package>
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23 <package>https://depot.galaxyproject.org/package/noarch/RSQLite_1.0.0.tar.gz</package>
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24 <package>https://depot.galaxyproject.org/package/noarch/digest_0.6.7.tar.gz</package>
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25 <package>https://depot.galaxyproject.org/package/noarch/Rcpp_0.11.3.tar.gz</package>
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26 <package>https://depot.galaxyproject.org/package/noarch/plyr_1.8.1.tar.gz</package>
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27 <package>https://depot.galaxyproject.org/package/noarch/gtable_0.1.2.tar.gz</package>
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28 <package>https://depot.galaxyproject.org/package/noarch/proto_0.3-10.tar.gz</package>
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29 <package>https://depot.galaxyproject.org/package/noarch/stringr_0.6.2.tar.gz</package>
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30 <package>https://depot.galaxyproject.org/package/noarch/reshape2_1.4.1.tar.gz</package>
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31 <package>https://depot.galaxyproject.org/package/noarch/RColorBrewer_1.1-2.tar.gz</package>
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32 <package>https://depot.galaxyproject.org/package/noarch/dichromat_2.0-0.tar.gz</package>
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33 <package>https://depot.galaxyproject.org/package/noarch/labeling_0.3.tar.gz</package>
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34 <package>https://depot.galaxyproject.org/package/noarch/colorspace_1.2-4.tar.gz</package>
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35 <package>https://depot.galaxyproject.org/package/noarch/munsell_0.4.2.tar.gz</package>
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36 <package>https://depot.galaxyproject.org/package/noarch/scales_0.2.4.tar.gz</package>
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37 <package>https://depot.galaxyproject.org/package/noarch/ggplot2_1.0.0.tar.gz</package>
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38 <package>https://depot.galaxyproject.org/package/noarch/fastcluster_1.1.13.tar.gz</package>
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39 <package>https://depot.galaxyproject.org/package/noarch/plyr_1.8.1.tar.gz</package>
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40 <package>https://depot.galaxyproject.org/package/noarch/getopt_1.20.0.tar.gz</package>
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41 <package>https://depot.galaxyproject.org/package/noarch/rjson_0.2.15.tar.gz</package>
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42 <package>https://depot.galaxyproject.org/package/noarch/findpython_1.0.1.tar.gz</package>
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43 <package>https://depot.galaxyproject.org/package/noarch/argparse_1.0.1.tar.gz</package>
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44 <package>https://depot.galaxyproject.org/package/noarch/lattice_0.20-29.tar.gz</package>
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45 <package>https://depot.galaxyproject.org/package/noarch/latticeExtra_0.6-26.tar.gz</package>
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46 <package>https://depot.galaxyproject.org/package/noarch/checkmate_1.5.1.tar.gz</package>
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47 <package>https://depot.galaxyproject.org/package/noarch/BBmisc_1.8.tar.gz</package>
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48 <package>https://depot.galaxyproject.org/package/noarch/brew_1.0-6.tar.gz</package>
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49 <package>https://depot.galaxyproject.org/package/noarch/fail_1.2.tar.gz</package>
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50 <package>https://depot.galaxyproject.org/package/noarch/base64enc_0.1-2.tar.gz</package>
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51 <package>https://depot.galaxyproject.org/package/noarch/sendmailR_1.2-1.tar.gz</package>
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52 <package>https://depot.galaxyproject.org/package/noarch/BatchJobs_1.5.tar.gz</package>
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53 <package>https://depot.galaxyproject.org/package/noarch/iterators_1.0.7.tar.gz</package>
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54 <package>https://depot.galaxyproject.org/package/noarch/codetools_0.2-9.tar.gz</package>
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55 <package>https://depot.galaxyproject.org/package/noarch/foreach_1.4.2.tar.gz</package>
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56 <package>https://depot.galaxyproject.org/package/noarch/Formula_1.1-2.tar.gz</package>
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57 <package>https://depot.galaxyproject.org/package/noarch/survival_2.37-7.tar.gz</package>
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58 <package>https://depot.galaxyproject.org/package/noarch/acepack_1.3-3.3.tar.gz</package>
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59 <package>https://depot.galaxyproject.org/package/noarch/Hmisc_3.14-6.tar.gz</package>
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60 <package>https://depot.galaxyproject.org/package/noarch/R.methodsS3_1.6.1.tar.gz</package>
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61 <package>https://depot.galaxyproject.org/package/noarch/matrixStats_0.12.2.tar.gz</package>
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62 <package>https://depot.galaxyproject.org/package/noarch/BiocGenerics_0.12.1.tar.gz</package>
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63 <package>http://bioarchive.galaxyproject.org/S4Vectors_0.4.0.tar.gz</package>
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64 <package>https://depot.galaxyproject.org/package/noarch/IRanges_2.0.1.tar.gz</package>
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65 <package>https://depot.galaxyproject.org/package/noarch/GenomeInfoDb_1.2.4.tar.gz</package>
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66 <package>http://bioarchive.galaxyproject.org/XVector_0.6.0.tar.gz</package>
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67 <package>https://depot.galaxyproject.org/package/noarch/GenomicRanges_1.18.3.tar.gz</package>
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68 <package>http://bioarchive.galaxyproject.org/zlibbioc_1.12.0.tar.gz</package>
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69 <package>https://depot.galaxyproject.org/package/noarch/Biostrings_2.34.1.tar.gz</package>
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70 <package>https://depot.galaxyproject.org/package/noarch/Rsamtools_1.18.2.tar.gz</package>
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71 <package>http://bioarchive.galaxyproject.org/BiocParallel_1.0.0.tar.gz</package>
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72 <package>http://bioarchive.galaxyproject.org/Biobase_2.26.0.tar.gz</package>
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73 <package>https://depot.galaxyproject.org/package/noarch/AnnotationDbi_1.28.1.tar.gz</package>
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74 <package>http://bioarchive.galaxyproject.org/biomaRt_2.22.0.tar.gz</package>
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75 <package>https://depot.galaxyproject.org/package/noarch/GenomicAlignments_1.2.1.tar.gz</package>
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76 <package>https://depot.galaxyproject.org/package/noarch/rtracklayer_1.26.2.tar.gz</package>
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77 <package>https://bioarchive.galaxyproject.org/BSgenome_1.34.0.tar.gz</package>
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78 <package>https://depot.galaxyproject.org/package/noarch/GenomicFeatures_1.18.3.tar.gz</package>
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79 <package>https://depot.galaxyproject.org/package/noarch/VariantAnnotation_1.12.7.tar.gz</package>
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80 <package>https://depot.galaxyproject.org/package/noarch/biovizBase_1.14.1.tar.gz</package>
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81 <package>https://depot.galaxyproject.org/package/noarch/Gviz_1.10.3.tar.gz</package>
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82 <package>https://depot.galaxyproject.org/package/noarch/cummeRbund_2.8.2.tar.gz</package>
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83 </action>
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84 </actions>
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85 </install>
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86 <readme>
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87 </readme>
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88 </package>
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89 </tool_dependency>