Mercurial > repos > fubar > differential_count_models

diff tool_dependencies.xml @ 90:2c7b33c84904 draft

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author fubar
date Thu, 27 Feb 2014 05:29:51 -0500
parents 6b95cd9e2648
children 6fb919a3bff4
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--- a/tool_dependencies.xml	Thu Feb 27 05:00:05 2014 -0500
+++ b/tool_dependencies.xml	Thu Feb 27 05:29:51 2014 -0500
@@ -25,7 +25,7 @@
                 <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; $INSTALL_DIR/runme.R</action>                
                 <action type="shell_command">echo "PATH=$PATH 1&gt;&amp;2"</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; 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