Mercurial > repos > geert-vandeweyer > coverage_report
changeset 5:26a5b8623597 draft
Uploaded
| author | geert-vandeweyer |
|---|---|
| date | Thu, 13 Feb 2014 04:46:46 -0500 |
| parents | 2799221681dd |
| children | bad3cf52d6e1 |
| files | tool_dependencies.xml |
| diffstat | 1 files changed, 28 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_dependencies.xml Thu Feb 13 04:46:46 2014 -0500 @@ -0,0 +1,28 @@ +<?xml version="1.0"?> +<tool_dependency> + <package name="R" version="2.11.0"> + <repository changeset_revision="8d0a55bf7aaf" name="package_r_2_11_0" owner="devteam" toolshed="http://toolshed.g2.bx.psu.edu" /> + </package> + <package name="bedtools" version="2.18.2"> + <install version="1.0"> + <actions> + <action type="download_by_url" target_filename="bedtools-2.18.2.tar.gz" >https://github.com/arq5x/bedtools2/releases/download/v2.18.2/bedtools-2.18.2.tar.gz</action> + <action type="shell_command">make</action> + <action type="move_file"> + <source>bin/</source> + <destination>$INSTALL_DIR/bin</destination> + </action> + <action type="set_environment"> + <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable> + </action> + </actions> + </install> + <readme> + Collectively, the bedtools utilities are a swiss-army knife of tools for a wide-range of genomics analysis tasks. The most widely-used tools enable genome arithmetic: that is, set theory on the genome. For example, bedtools allows one to intersect, merge, count, complement, and shuffle genomic intervals from multiple files in widely-used genomic file formats such as BAM, BED, GFF/GTF, VCF. + </readme> + </package> + <package name="samtools" version="0.1.18"> + <repository changeset_revision="171cd8bc208d" name="package_samtools_0_1_18" owner="devteam" toolshed="http://toolshed.g2.bx.psu.edu" /> + </package> +</tool_dependency> +