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changeset 5:be94ae8dac28

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Uploaded
author fcaramia
date Sun, 02 Dec 2012 19:44:11 -0500
parents 9a76d500b049
children 3259b48e82c0
files tool_dependencies.xml
diffstat 1 files changed, 22 insertions(+), 0 deletions(-) [+]
line wrap: on
line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Sun Dec 02 19:44:11 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>