Mercurial > repos > geert-vandeweyer > package_bedtools_2_18_2

changeset 0:35905f2ae9f4 draft default tip

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author geert-vandeweyer
date Thu, 20 Feb 2014 08:53:22 -0500
parents
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files tool_dependencies.xml
diffstat 1 files changed, 21 insertions(+), 0 deletions(-) [+]
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Thu Feb 20 08:53:22 2014 -0500
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+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="bedtools" version="2.18.2">
+	<install version="1.0">
+		<actions>
+			<action type="download_by_url" target_filename="bedtools2-2.18.2.tar.gz" >https://github.com/arq5x/bedtools2/archive/v2.18.2.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>
+</tool_dependency>