# HG changeset patch
# User fubar
# Date 1371039446 14400
# Node ID 3f316c8adf4ce0fb0b1ecfa6a05c35f7b5b35f8d
# Parent  13b7fdf4cba9b0fbf020a41f032da0b9989344ff
Uploaded

diff -r 13b7fdf4cba9 -r 3f316c8adf4c rgedgeR/tool_dependencies.xml
--- a/rgedgeR/tool_dependencies.xml	Wed Jun 12 07:44:46 2013 -0400
+++ b/rgedgeR/tool_dependencies.xml	Wed Jun 12 08:17:26 2013 -0400
@@ -4,12 +4,12 @@
         <install version="1.0">
             <actions>
                 <action type="set_environment_for_install">
-                    <repository name="package_R3" owner="fubar" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu/" />
-                    <set_environment toolshed="http://testtoolshed.g2.bx.psu.edu" version="1.0">
-                        <environment_variable action="set_to" name="R_SCRIPT_PATH">$REPOSITORY_INSTALL_DIR</environment_variable>   
-                    </set_environment>
+                      <package name="R3" toolshed="http://testtoolshed.g2.bx.psu.edu" version="3.0.1">
+                            <repository name="package_R3" owner="fubar" prior_installation_required="True"  toolshed="http://testtoolshed.g2.bx.psu.edu/"/>
+                        </package>
+                    
                 </action>
-                <action type="shell_command">R CMD BATCH installBioC.R </action>
+                <action type="shell_command">$R_HOME/R CMD BATCH installBioC.R </action>
             </actions>
         </install>
         <readme>R is a free software environment for statistical computing and graphics