# HG changeset patch
# User fcaramia
# Date 1354507812 18000
# Node ID d63052c0d852962e092eb55a3d367961f32cb4a7
# Parent  b6ce842a633dcc36926422c6421a0a6e6aa95e67
Uploaded

diff -r b6ce842a633d -r d63052c0d852 tool_dependencies.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Sun Dec 02 23:10:12 2012 -0500
@@ -0,0 +1,22 @@
+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="bedtools" version="2.17.0">
+        <install version="1.0">
+            <actions>
+                <action type="download_by_url">http://bedtools.googlecode.com/files/BEDTools.v2.17.0.tar.gz</action>
+                <action type="shell_command">tar -zxvf BEDTools.v2.17.0.tar.gz </action>
+                <action type="shell_command">cd BEDTools.v2.17.0</action>
+                <action type="shell_command">make clean</action>
+                <action type="shell_command">make all</action>
+                <action type="shell_command">cp bin/* $INSTALL_DIR/bin</action>
+                
+                <action type="set_environment">
+                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
+                </action>
+            </actions>
+        </install>
+        <readme>
+GCC version 4.1 or greater is recommended. 3.x versions will typically not compile BEDTools
+        </readme>
+    </package>
+</tool_dependency>