# HG changeset patch
# User stef
# Date 1402996480 14400
# Node ID ecc807c0f4f578040489f82ec23ef234319150f7
# Parent  eefb834376ba84629c65b44c29a9edbb0347383b
Uploaded

diff -r eefb834376ba -r ecc807c0f4f5 tool_dependencies.xml
--- a/tool_dependencies.xml	Tue Jun 17 04:43:08 2014 -0400
+++ b/tool_dependencies.xml	Tue Jun 17 05:14:40 2014 -0400
@@ -3,7 +3,7 @@
 	
 	<set_environment version="1.0">
      	<environment_variable name="QDNASEQ_SCRIPT_PATH" action="set_to">$REPOSITORY_INSTALL_DIR</environment_variable>
-     </set_environment>
+    </set_environment>
 
 	<package name="R" version="3.0.3">
 		<repository changeset_revision="232ebc8b1c0d" name="package_r_3_0_3" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu/" />
@@ -17,8 +17,9 @@
 				
 				<action type="shell_command">echo "[DEBUG] BEFORE:" &amp;&amp; pwd</action>
 				<action type="shell_command">echo "[DEBUG] DIR LISTING:" &amp;&amp; ls -l</action>
+				<action type="shell_command">echo "[DEBUG] DIR LISTING ONE UP:" &amp;&amp; ls -l ../</action>
 				<action type="move_file">
-					<source>$REPOSITORY_INSTALL_DIR/QDNAseq.R</source>
+					<source>"../QDNAseq.R"</source>
 					<destination>./</destination>
 				</action>