# HG changeset patch
# User lparsons
# Date 1411758170 14400
# Node ID 8e7baa602cecb6a3ce3696b8ddfe16dc17b89ec0

Initial version

diff -r 000000000000 -r 8e7baa602cec tool_dependencies.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Fri Sep 26 15:02:50 2014 -0400
@@ -0,0 +1,31 @@
+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="rseqc" version="2.4">
+        <install version = "1.0">
+            <actions>
+                <action type="download_by_url">http://sourceforge.net/projects/rseqc/files/RSeQC-2.4.tar.gz</action>
+                <!-- <action type="set_environment_for_install">
+                    <repository name="package_r_3_0_3" owner="iuc">
+                        <package name="R" version="3.0.3" />
+                    </repository>
+                   <repository name="package_numpy_1_7" owner="iuc">
+                        <package name="numpy" version="1.7" />
+                    </repository>
+                </action>
+                -->
+                <!-- Not sure why these must be made apriori, but install fails otherwise -->
+                <action type="make_directory">$INSTALL_DIR/lib/python</action> 
+                <action type="make_directory">$INSTALL_DIR/lib64/python</action>
+                <action type="shell_command">export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp; python setup.py install --install-lib $INSTALL_DIR/lib/python --install-scripts $INSTALL_DIR/bin</action>
+                <action type="set_environment">
+                    <environment_variable name="PYTHONPATH" action="prepend_to">$INSTALL_DIR/lib/python</environment_variable>
+                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
+                </action>
+            </actions>
+        </install>
+        <readme>
+            RSeQC version 2.4, documentation available at http://rseqc.sourceforge.net/.
+            Requires gcc and python 2.7.
+        </readme>
+    </package>
+</tool_dependency>