Mercurial > repos > iuc > package_deseq2_1_2_10

comparison tool_dependencies.xml @ 1:57b5f2997809 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_deseq2_1_2_10 commit ac7b2da6e82eb2958d47d096b78ecf7b42ce07e6
author iuc
date Wed, 20 Jul 2016 13:48:27 -0400
parents 2d4a7ae561d6
children 0a008f2fcfb0
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0:2d4a7ae561d6 1:57b5f2997809
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool_dependency> 2 <tool_dependency>
3 <package name="R" version="3.0.3"> 3 <package name="R" version="3.0.3">
4 <repository changeset_revision="f386d7431fe0" name="package_r_3_0_3" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> 4 <repository changeset_revision="afc48696ee5c" name="package_r_3_0_3" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
5 </package> 5 </package>
6 <package name="deseq2" version="1.2.10"> 6 <package name="deseq2" version="1.2.10">
7 <install version="1.0"> 7 <install version="1.0">
8 <actions> 8 <actions>
9 <action type="setup_r_environment"> 9 <action type="setup_r_environment">
10 10
11 <repository changeset_revision="f386d7431fe0" name="package_r_3_0_3" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu"> 11 <repository changeset_revision="afc48696ee5c" name="package_r_3_0_3" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
12 <package name="R" version="3.0.3" /> 12 <package name="R" version="3.0.3" />
13 </repository> 13 </repository>
14 <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/getopt_1.20.0.tar.gz</package> 14 <package sha256sum="f920baa2a0ef7082155c8b666851af0c77534af8b2ca0cd067e7d56fdf3ec501">
15 <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/BiocGenerics_0.8.0.tar.gz</package> 15 https://depot.galaxyproject.org/software/getopt/getopt_1.20.0_src_all.tar.gz
16 <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/IRanges_1.20.6.tar.gz</package> 16 </package>
17 <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/GenomicRanges_1.14.4.tar.gz</package> 17 <package sha256sum="a3742b8b4098133aaedef0b191601012611201510ff07246f1166d048f7069ba">
18 <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/Rcpp_0.11.0.tar.gz</package> 18 https://depot.galaxyproject.org/software/BiocGenerics/BiocGenerics_0.8.0_src_all.tar.gz
19 <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/RcppArmadillo_0.4.000.2.tar.gz</package> 19 </package>
20 <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/locfit_1.5-9.1.tar.gz</package> 20 <package sha256sum="98c4d71ac6214c8f358821c440b9e0636f62cc8838d704889116b2efdf74e65f">
21 <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/Biobase_2.22.0.tar.gz</package> 21 https://depot.galaxyproject.org/software/IRanges/IRanges_1.20.6_src_all.tar.gz
22 <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/DBI_0.2-7.tar.gz</package> 22 </package>
23 <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/RSQLite_0.11.4.tar.gz</package> 23 <package sha256sum="7a32f3c06f36186906423691e1c532a27f16f318a76a237bfb08d9b6dadddc71">
24 <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/AnnotationDbi_1.24.0.tar.gz</package> 24 https://depot.galaxyproject.org/software/XVector/XVector_0.2.0_src_all.tar.gz
25 <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/xtable_1.7-1.tar.gz</package> 25 </package>
26 <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/XML_3.98-1.1.tar.gz</package> 26 <package sha256sum="f1eb07db9db5fde6c7992e29dc6c8428310a345d22f80fc68ede2c54637cc7da">
27 <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/annotate_1.40.0.tar.gz</package> 27 https://depot.galaxyproject.org/software/GenomicRanges/GenomicRanges_1.14.4_src_all.tar.gz
28 <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/genefilter_1.44.0.tar.gz</package> 28 </package>
29 <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/RColorBrewer_1.0-5.tar.gz</package> 29 <package sha256sum="5b093de76f177b5ebe03ce27e00e3d0a15e7a8e34e2c72b5e423588aebd0d91e">
30 <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/DESeq2_1.2.10.tar.gz</package> 30 https://depot.galaxyproject.org/software/Rcpp/Rcpp_0.11.0_src_all.tar.gz
31 <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/rjson_0.2.13.tar.gz</package> 31 </package>
32 <package sha256sum="0da41345c2fe05b9737a653313dcd9fcb235cdcaff541d63156575ac2ce4cd8e">
33 https://depot.galaxyproject.org/software/RcppArmadillo/RcppArmadillo_0.4.000.2_src_all.tar.gz
34 </package>
35 <package sha256sum="f524148fdb29aac3a178618f88718d3d4ac91283014091aa11a01f1c70cd4e51">
36 https://depot.galaxyproject.org/software/locfit/locfit_1.5-9.1_src_all.tar.gz
37 </package>
38 <package sha256sum="52e0877a76cdcc9f5e9c59a99c74decbe973d668c51a2242027069add16f11af">
39 https://depot.galaxyproject.org/software/Biobase/Biobase_2.22.0_src_all.tar.gz
40 </package>
41 <package sha256sum="e90a988740f99060d5c4aacb1f2b148b0eb81c5b468bafeadf3aaeccf563b5e3">
42 https://depot.galaxyproject.org/software/DBI/DBI_0.2-7_src_all.tar.gz
43 </package>
44 <package sha256sum="bba0cbf2a1a3120d667a731da1ca5b9bd4db23b813e1abf6f51fb01540c2000c">
45 https://depot.galaxyproject.org/software/RSQLite/RSQLite_0.11.4_src_all.tar.gz
46 </package>
47 <package sha256sum="132777be015a3ce8f1c97abba1b628622bcc0bef5ce49d22eec29a7a90a66ac5">
48 https://depot.galaxyproject.org/software/AnnotationDbi/AnnotationDbi_1.24.0_src_all.tar.gz
49 </package>
50 <package sha256sum="241612679ef52cae08090ced5a8c2fdf0a0b58cd034da5a29b88e4bf21606ea2">
51 https://depot.galaxyproject.org/software/xtable/xtable_1.7-1_src_all.tar.gz
52 </package>
53 <package sha256sum="947318e0e0d272bcd57244999d897d6f7b2624554fdf451f8c3c0461c8313159">
54 https://depot.galaxyproject.org/software/XML/XML_3.98-1_src_all.tar.gz
55 </package>
56 <package sha256sum="88e66b6c1d6084822802cf2e8f7a3c38ecf65477dd218781b37db4393c41d966">
57 https://depot.galaxyproject.org/software/annotate/annotate_1.40.0_src_all.tar.gz
58 </package>
59 <package sha256sum="09cc9121e1905adb7b44365288e1b972dbf1b78345886b6305e4de2ded41c48b">
60 https://depot.galaxyproject.org/software/genefilter/genefilter_1.44.0_src_all.tar.gz
61 </package>
62 <package sha256sum="5ac1c44c1a53f9521134e7ed7c148c72e49271cbd229c5263d2d7fd91c8b8e78">
63 https://depot.galaxyproject.org/software/RColorBrewer/RColorBrewer_1.0-5_src_all.tar.gz
64 </package>
65 <package sha256sum="d19047264bd8eb119e1842028d486df75b219242640c303c0a9bad66b9cf135a">
66 https://depot.galaxyproject.org/software/DESeq2/DESeq2_1.2.10_src_all.tar.gz
67 </package>
68 <package sha256sum="24cf93ef25b222295d689a42e126bc15d7ab3e24b83891cf5c11796431cd045c">
69 https://depot.galaxyproject.org/software/rjson/rjson_0.2.13_src_all.tar.gz
70 </package>
32 </action> 71 </action>
33 </actions> 72 </actions>
34 </install> 73 </install>
35 <readme> 74 <readme>
36 Differential gene expression analysis based on the negative binomial distribution. 75 Differential gene expression analysis based on the negative binomial distribution.
37 http://www.bioconductor.org/packages/2.12/bioc/html/DESeq2.html 76 https://www.bioconductor.org/packages/2.12/bioc/html/DESeq2.html
38 Ubuntu has a bug with libgfortran. To fix that create a symlink like: sudo ln -s /usr/lib/x86_64-linux-gnu/libgfortran.so.3 /usr/lib/x86_64-linux-gnu/libgfortran.so 77 Ubuntu has a bug with libgfortran. To fix that create a symlink like: sudo ln -s /usr/lib/x86_64-linux-gnu/libgfortran.so.3 /usr/lib/x86_64-linux-gnu/libgfortran.so
39 </readme> 78 </readme>
40 </package> 79 </package>
41 </tool_dependency> 80 </tool_dependency>