# HG changeset patch
# User fubar
# Date 1371028311 14400
# Node ID c788c80783380de1120066816dd6f0a45f68a3ca
# Parent  957b847eaed64c82bc4a87a2e6a5a164f83cbadc
Uploaded

diff -r 957b847eaed6 -r c788c8078338 rgedgeR/tool_dependencies.xml
--- a/rgedgeR/tool_dependencies.xml	Wed Jun 12 04:21:33 2013 -0400
+++ b/rgedgeR/tool_dependencies.xml	Wed Jun 12 05:11:51 2013 -0400
@@ -13,7 +13,7 @@
                     </repository>
                 </action>
                 <action type="make_directory">$INSTALL_DIR</action>
-                <action type="shell_command">./configure --with-blas --with-lapack --enable-R-shlib --with-readline=no --with-x=no --prefix=$INSTALL_DIR &amp;&amp; make &amp;&amp; make install</action>
+                <action type="shell_command">./configure --with-blas --with-lapack --enable-R-shlib  --with-x=no --prefix=$INSTALL_DIR &amp;&amp; make &amp;&amp; make install</action>
                 <action type="set_environment">
                     <environment_variable action="set_to" name="R_HOME">$INSTALL_DIR/lib/R</environment_variable>
                     <environment_variable action="set_to" name="R_LIBS">$INSTALL_DIR/lib/R/library</environment_variable>
@@ -30,7 +30,10 @@
     <package name="package_BioCBasics" version="2.12">
         <install version="1.0">
             <actions>
-                <action type="shell_command">$INSTALL_DIR/lib/R/bin/R CMD BATCH installBioC.R </action>
+                <action type="set_environment_for_install">
+                    
+                </action>
+                <action type="shell_command">$R_HOME/bin/R CMD BATCH installBioC.R </action>
             </actions>
         </install>
         <readme>R is a free software environment for statistical computing and graphics