Mercurial > repos > iuc > package_deseq2_1_2_10
changeset 0:43ec8420b239 draft
Uploaded
author | iuc |
---|---|
date | Wed, 19 Feb 2014 07:51:44 -0500 |
parents | |
children | 2d3eb2823bf7 |
files | tool_dependencies.xml |
diffstat | 1 files changed, 43 insertions(+), 0 deletions(-) [+] |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_dependencies.xml Wed Feb 19 07:51:44 2014 -0500 @@ -0,0 +1,43 @@ +<?xml version="1.0"?> +<tool_dependency> + <package name="R_3_0_2" version="3.0.2"> + <repository changeset_revision="9aac33c71188" name="package_r_3_0_2" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.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="9aac33c71188" name="package_r_3_0_2" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu"> + <package name="R_3_0_2" version="3.0.2" /> + </repository> + + <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>