Mercurial > repos > bgruening > diffbind
changeset 4:69138bfd8644 draft
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/diffbind commit 074fed99c6df6bad17341bbfa57645f222907ad4
| author | bgruening |
|---|---|
| date | Wed, 12 Apr 2017 15:14:20 -0400 |
| parents | d6dcb3dd5f8f |
| children | b5839ce0befb |
| files | diffbind.xml tool_dependencies.xml |
| diffstat | 2 files changed, 2 insertions(+), 48 deletions(-) [+] |
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--- a/diffbind.xml Tue Mar 08 08:13:00 2016 -0500 +++ b/diffbind.xml Wed Apr 12 15:14:20 2017 -0400 @@ -1,11 +1,7 @@ -<tool id="diffbind" name="DiffBind" version="2.1.0"> +<tool id="diffbind" name="DiffBind" version="2.2.0"> <description> differential binding analysis of ChIP-Seq peak data</description> <requirements> - <requirement type="binary">Rscript</requirement> - <requirement type="R-module">DESeq2</requirement> - <requirement type="package" version="3.0.3">R</requirement> - <requirement type="package" version="1.2.10">deseq2</requirement> - <requirement type="package" version="1.8.3">diffbind</requirement> + <requirement type="package" version="1.16.3">bioconductor-diffbind</requirement> </requirements> <stdio> <regex match="Execution halted"
--- a/tool_dependencies.xml Tue Mar 08 08:13:00 2016 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,42 +0,0 @@ -<?xml version="1.0"?> -<tool_dependency> - <package name="R" version="3.0.3"> - <repository changeset_revision="afc48696ee5c" 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"> - <repository changeset_revision="2d4a7ae561d6" name="package_deseq2_1_2_10" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> - </package> - <package name="diffbind" version="1.8.3"> - <install version="1.0"> - <actions> - <action type="setup_r_environment"> - <repository changeset_revision="afc48696ee5c" 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/DiffBind-1_8_3/BiocGenerics_0.8.0.tar.gz</package> - <package>https://github.com/bgruening/download_store/raw/master/DiffBind-1_8_3/IRanges_1.20.6.tar.gz</package> - <package>https://github.com/bgruening/download_store/raw/master/DiffBind-1_8_3/XVector_0.2.0.tar.gz</package> - <package>https://github.com/bgruening/download_store/raw/master/DiffBind-1_8_3/limma_3.18.9.tar.gz</package> - <package>https://github.com/bgruening/download_store/raw/master/DiffBind-1_8_3/gtools_3.1.1.tar.gz</package> - <package>https://github.com/bgruening/download_store/raw/master/DiffBind-1_8_3/gdata_2.13.2.tar.gz</package> - <package>https://github.com/bgruening/download_store/raw/master/DiffBind-1_8_3/bitops_1.0-6.tar.gz</package> - <package>https://github.com/bgruening/download_store/raw/master/DiffBind-1_8_3/caTools_1.16.tar.gz</package> - <package>https://github.com/bgruening/download_store/raw/master/DiffBind-1_8_3/Biostrings_2.30.1.tar.gz</package> - <package>https://github.com/bgruening/download_store/raw/master/DiffBind-1_8_3/GenomicRanges_1.14.4.tar.gz</package> - <package>https://github.com/bgruening/download_store/raw/master/DiffBind-1_8_3/RColorBrewer_1.0-5.tar.gz</package> - <package>https://github.com/bgruening/download_store/raw/master/DiffBind-1_8_3/amap_0.8-7.tar.gz</package> - <package>https://github.com/bgruening/download_store/raw/master/DiffBind-1_8_3/edgeR_3.4.2.tar.gz</package> - <package>https://github.com/bgruening/download_store/raw/master/DiffBind-1_8_3/gplots_2.12.1.tar.gz</package> - <package>https://github.com/bgruening/download_store/raw/master/DiffBind-1_8_3/zlibbioc_1.8.0.tar.gz</package> - <package>https://github.com/bgruening/download_store/raw/master/DiffBind-1_8_3/Rsamtools_1.14.2.tar.gz</package> - <package>https://github.com/bgruening/download_store/raw/master/DiffBind-1_8_3/DiffBind_1.8.3.tar.gz</package> - <package>https://github.com/bgruening/download_store/raw/master/DiffBind-1_8_3/getopt_1.20.0.tar.gz</package> - </action> - </actions> - </install> - <readme> - Differential Binding Analysis of ChIP-Seq peak data - http://www.bioconductor.org/packages/release/bioc/html/DiffBind.html - </readme> - </package> -</tool_dependency>