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comparison tool_dependencies.xml @ 2:b19cb9385f28 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dexseq commit 93762b03363b176c3bc9bff78e34db8b2c1971b1-dirty
author iuc
date Fri, 25 Sep 2015 15:57:00 -0400
parents 36fe30ece23b
children a26a82bed63f
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1:36fe30ece23b 2:b19cb9385f28
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool_dependency> 2 <tool_dependency>
3 <package name="pysam" version="0.7.6"> 3 <package name="dexseq" version="1.14">
4 <repository changeset_revision="247e5e5bee87" name="package_pysam_0_7_6" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> 4 <repository changeset_revision="cb7ad0ece9e8" name="package_dexseq_1_14" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" />
5 </package>
6 <package name="htseq" version="0.6.1">
7 <repository changeset_revision="025da27a2bb2" name="package_htseq_0_6" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
8 </package>
9 <package name="R" version="3.2.1">
10 <repository changeset_revision="fefdc0b8349a" name="package_r_3_2_1" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
11 </package>
12 <package name="cairo" version="1.12.14">
13 <repository changeset_revision="5c25a57405a9" name="package_cairo_1_12_14" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
14 </package>
15 <package name="tiff" version="4.0.3">
16 <repository changeset_revision="3fecd5a9a64c" name="package_tiff_4_0_3" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
17 </package>
18 <package name="dexseq" version="1.14.2">
19 <install version="1.0">
20 <actions>
21 <action type="setup_r_environment">
22 <repository changeset_revision="fefdc0b8349a" name="package_r_3_2_1" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
23 <package name="R" version="3.2.1" />
24 </repository>
25 <repository changeset_revision="3fecd5a9a64c" name="package_tiff_4_0_3" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
26 <package name="tiff" version="4.0.3" />
27 </repository>
28 <repository changeset_revision="5c25a57405a9" name="package_cairo_1_12_14" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
29 <package name="cairo" version="1.12.14" />
30 </repository>
31 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/Cairo_1.5-8.tar.gz</package>
32 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/rjson_0.2.15.tar.gz</package>
33 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/getopt_1.20.0.tar.gz</package>
34 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/lambda.r_1.1.7.tar.gz</package>
35 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/futile.options_1.0.0.tar.gz</package>
36 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/futile.logger_1.4.1.tar.gz</package>
37 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/snow_0.3-13.tar.gz</package>
38 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/BiocParallel_1.2.20.tar.gz</package>
39 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/BiocGenerics_0.14.0.tar.gz</package>
40 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/Biobase_2.28.0.tar.gz</package>
41 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/S4Vectors_0.6.4.tar.gz</package>
42 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/IRanges_2.2.7.tar.gz</package>
43 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/GenomeInfoDb_1.4.2.tar.gz</package>
44 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/XVector_0.8.0.tar.gz</package>
45 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/GenomicRanges_1.20.5.tar.gz</package>
46 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/Rcpp_0.12.0.tar.gz</package>
47 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/RcppArmadillo_0.5.400.2.0.tar.gz</package>
48 <package>https://github.cfreetom/bgruening/download_store/raw/master/DEXSeq_1.14.2/DBI_0.3.1.tar.gz</package>
49 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/RSQLite_1.0.0.tar.gz</package>
50 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/AnnotationDbi_1.30.1.tar.gz</package>
51 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/XML_3.98-1.3.tar.gz</package>
52 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/xtable_1.7-4.tar.gz</package>
53 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/annotate_1.46.1.tar.gz</package>
54 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/survival_2.38-3.tar.gz</package>
55 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/genefilter_1.50.0.tar.gz</package>
56 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/lattice_0.20-33.tar.gz</package>
57 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/locfit_1.5-9.1.tar.gz</package>
58 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/RColorBrewer_1.1-2.tar.gz</package>
59 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/geneplotter_1.46.0.tar.gz</package>
60 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/plyr_1.8.3.tar.gz</package>
61 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/digest_0.6.8.tar.gz</package>
62 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/gtable_0.1.2.tar.gz</package>
63 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/stringi_0.5-5.tar.gz</package>
64 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/magrittr_1.5.tar.gz</package>
65 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/stringr_1.0.0.tar.gz</package>
66 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/reshape2_1.4.1.tar.gz</package>
67 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/dichromat_2.0-0.tar.gz</package>
68 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/colorspace_1.2-6.tar.gz</package>
69 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/munsell_0.4.2.tar.gz</package>
70 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/labeling_0.3.tar.gz</package>
71 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/scales_0.3.0.tar.gz</package>
72 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/proto_0.3-10.tar.gz</package>
73 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/MASS_7.3-44.tar.gz</package>
74 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/ggplot2_1.0.1.tar.gz</package>
75 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/Formula_1.2-1.tar.gz</package>
76 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/latticeExtra_0.6-26.tar.gz</package>
77 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/cluster_2.0.3.tar.gz</package>
78 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/rpart_4.1-10.tar.gz</package>
79 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/nnet_7.3-11.tar.gz</package>
80 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/acepack_1.3-3.3.tar.gz</package>
81 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/foreign_0.8-66.tar.gz</package>
82 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/gridExtra_2.0.0.tar.gz</package>
83 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/Hmisc_3.16-0.tar.gz</package>
84 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/DESeq2_1.8.1.tar.gz</package>
85 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/bitops_1.0-6.tar.gz</package>
86 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/RCurl_1.95-4.7.tar.gz</package>
87 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/biomaRt_2.24.0.tar.gz</package>
88 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/hwriter_1.3.2.tar.gz</package>
89 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/zlibbioc_1.14.0.tar.gz</package>
90 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/Biostrings_2.36.4.tar.gz</package>
91 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/Rsamtools_1.20.4.tar.gz</package>
92 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/statmod_1.4.21.tar.gz</package>
93 <package>https://github.com/bgruening/download_store/raw/master/DEXSeq_1.14.2/DEXSeq_1.14.2.tar.gz</package>
94 </action>
95 <action type="set_environment">
96 <environment_variable action="set_to" name="DEXSEQ_ROOT">$INSTALL_DIR/DEXSeq/</environment_variable>
97 </action>
98 </actions>
99 </install>
100 <readme>
101 DEXSeq in version
102 </readme>
103 </package> 5 </package>
104 </tool_dependency> 6 </tool_dependency>