# HG changeset patch
# User fubar
# Date 1373269099 14400
# Node ID 590068a0c820ff608f221f3c0c24e0a03870ac48
# Parent  1212dc390f4fdb985e002a8ce0c980e8c398ebf7
Uploaded

diff -r 1212dc390f4f -r 590068a0c820 rgedgeR/tool_dependencies.xml
--- a/rgedgeR/tool_dependencies.xml	Mon Jun 17 04:40:18 2013 -0400
+++ b/rgedgeR/tool_dependencies.xml	Mon Jul 08 03:38:19 2013 -0400
@@ -1,13 +1,15 @@
 <?xml version="1.0"?>
 <tool_dependency>
-    <package name="package_r3" version="3.0.1">
-        <repository changeset_revision="6344ee60d0cf" name="package_r3" owner="fubar" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu/" />
+    <!-- swap to bjorn gruening's much better R 3.0 package. Especially now that altas doesn't shrug on my laptop :) -->
+    <package name="package_r_3_0_1" version="3.0.1">
+        http://testtoolshed.g2.bx.psu.edu/view/bgruening/package_r_3_0_1
+        <repository changeset_revision="1d5580f2ece0" name="package_r_3_0_1" owner="bgruening" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu/" />
     </package>
     <package name="biocbasics" version="2.12">
         <install version="1.0"> 
             <actions>
                 <action type="set_environment_for_install">
-                    <repository changeset_revision="6344ee60d0cf" name="package_r3" owner="fubar" toolshed="http://testtoolshed.g2.bx.psu.edu/">
+                    <repository changeset_revision="1d5580f2ece0" name="package_r_3_0_1" owner="bgruening" toolshed="http://testtoolshed.g2.bx.psu.edu/">
                         <package name="r3" version="3.0.1" />
                     </repository>
                 </action>
@@ -23,7 +25,9 @@
              </actions>
         </install>
         <readme>Installs some basic bioc packages for the edgeR wrapper
-        It's clunky but this is the only way I could get anything installed into the package_r3 R
+        It's clunky but this is seems to install bioc things in package_r3 R
+        There are more dependencies like xml2lib and curl - if not in buildessentials that probably belong in the R package installer
+        Send code.
        </readme>
     </package>
 </tool_dependency>