# HG changeset patch
# User fubar
# Date 1392680806 18000
# Node ID 919822102c865fd3cb4b03ec27521959dd8e577f
# Parent  a2016dfb1de5d1e80510c03932ff7e94758b6a1d
Uploaded

diff -r a2016dfb1de5 -r 919822102c86 tool_dependencies.xml
--- a/tool_dependencies.xml	Mon Feb 17 18:42:08 2014 -0500
+++ b/tool_dependencies.xml	Mon Feb 17 18:46:46 2014 -0500
@@ -24,7 +24,7 @@
                 <action type="shell_command">echo "biocLite(installme)" &gt;&gt; $INSTALL_DIR/runme.R</action>
                 <action type="shell_command">echo "install.packages(c('stringr','gplots'),dependencies=T,repos='http://cran.us.r-project.org')" &gt;&gt; $INSTALL_DIR/runme.R</action>
                 <action type="shell_command">echo "quit(save='no')" &gt;&gt; $INSTALL_DIR/runme.R</action>                
-                <action type="shell_command"> export PATH=$PATH &amp;&amp; export R_HOME=$R_HOME &amp;&amp; export R_LIBS=$R_LIBS &amp;&amp; R CMD BATCH $INSTALL_DIR/runme.R </action>
+                <action type="shell_command"> export PATH=$PATH &amp;&amp; export R_HOME=$R_HOME &amp;&amp; export R_LIBS=$R_LIBS &amp;&amp; $R_PATH/R CMD BATCH $INSTALL_DIR/runme.R </action>
             </actions>
         </install>
         <readme>Installs some basic bioc packages for the edgeR wrapper and dependencies graphicsmagick (replaces imagemagick) and ghostscript for compressing R's bloated pdfs