Mercurial > repos > iuc > package_deseq2_1_2_10
changeset 0:2d4a7ae561d6 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_deseq2_1_2_10 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
| author | iuc |
|---|---|
| date | Tue, 19 May 2015 14:57:44 -0400 |
| parents | |
| children | 57b5f2997809 |
| files | tool_dependencies.xml |
| diffstat | 1 files changed, 41 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_dependencies.xml Tue May 19 14:57:44 2015 -0400 @@ -0,0 +1,41 @@ +<?xml version="1.0"?> +<tool_dependency> + <package name="R" version="3.0.3"> + <repository changeset_revision="f386d7431fe0" name="package_r_3_0_3" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> + </package> + <package name="deseq2" version="1.2.10"> + <install version="1.0"> + <actions> + <action type="setup_r_environment"> + + <repository changeset_revision="f386d7431fe0" name="package_r_3_0_3" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu"> + <package name="R" version="3.0.3" /> + </repository> + <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/getopt_1.20.0.tar.gz</package> + <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/BiocGenerics_0.8.0.tar.gz</package> + <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/IRanges_1.20.6.tar.gz</package> + <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/GenomicRanges_1.14.4.tar.gz</package> + <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/Rcpp_0.11.0.tar.gz</package> + <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/RcppArmadillo_0.4.000.2.tar.gz</package> + <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/locfit_1.5-9.1.tar.gz</package> + <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/Biobase_2.22.0.tar.gz</package> + <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/DBI_0.2-7.tar.gz</package> + <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/RSQLite_0.11.4.tar.gz</package> + <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/AnnotationDbi_1.24.0.tar.gz</package> + <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/xtable_1.7-1.tar.gz</package> + <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/XML_3.98-1.1.tar.gz</package> + <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/annotate_1.40.0.tar.gz</package> + <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/genefilter_1.44.0.tar.gz</package> + <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/RColorBrewer_1.0-5.tar.gz</package> + <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/DESeq2_1.2.10.tar.gz</package> + <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_2_10/rjson_0.2.13.tar.gz</package> + </action> + </actions> + </install> + <readme> + Differential gene expression analysis based on the negative binomial distribution. + http://www.bioconductor.org/packages/2.12/bioc/html/DESeq2.html + 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 + </readme> + </package> +</tool_dependency>