# HG changeset patch
# User bgruening
# Date 1372635017 14400
# Node ID 564b46e4fda7787ea909f7bdd5df418d3182968f
# Parent  856591655486972f12150ec7571f7127f595de73
Uploaded

diff -r 856591655486 -r 564b46e4fda7 tool_dependencies.xml
--- a/tool_dependencies.xml	Sun Jun 30 18:05:17 2013 -0400
+++ b/tool_dependencies.xml	Sun Jun 30 19:30:17 2013 -0400
@@ -1,32 +1,31 @@
 <?xml version="1.0"?>
 <tool_dependency>
-    <!--
     <package name="lapack" version="3.4.2">
-        <repository name="package_lapack_3_4" owner="bgruening" prior_installation_required="True" />
+        <repository changeset_revision="a6b8f46acca7" name="package_lapack_3_4" owner="bgruening" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
     </package>
     <package name="atlas" version="3.10.1">
-        <repository name="package_atlas_3_10" owner="bgruening" prior_installation_required="True" />
+        <repository changeset_revision="25dc49b0d6d5" name="package_atlas_3_10" owner="bgruening" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
     </package>
-
     <package name="readline" version="6.2">
-        <repository name="package_readline_6_2" owner="boris" toolshed="http://testtoolshed.g2.bx.psu.edu/" />
+        <repository changeset_revision="782fae4417eb" name="package_readline_6_2" owner="bgruening" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
     </package>
-    -->
 
     <package name="R_3_0_1" version="3.0.1">
         <install version="1.0">
             <actions>
                 <action type="download_by_url">http://cran.ms.unimelb.edu.au/src/base/R-3/R-3.0.1.tar.gz</action>
-                <!--
                 <action type="set_environment_for_install">
-                    <repository name="package_atlas_3_10" owner="bgruening">
+                    <repository changeset_revision="25dc49b0d6d5" name="package_atlas_3_10" owner="bgruening" toolshed="http://testtoolshed.g2.bx.psu.edu">
                         <package name="atlas" version="3.10.1" />
                     </repository>
-                    <repository name="package_lapack_3_4" owner="bgruening">
+                    <repository changeset_revision="a6b8f46acca7" name="package_lapack_3_4" owner="bgruening" toolshed="http://testtoolshed.g2.bx.psu.edu">
                         <package name="lapack" version="3.4.2" />
                     </repository>
+                    <repository changeset_revision="782fae4417eb" name="package_readline_6_2" owner="bgruening" toolshed="http://testtoolshed.g2.bx.psu.edu">
+                        <package name="readline" version="6.2" />
+                    </repository>
                 </action>
-                -->
+
                 <!--
                 with-blas="$LAPACK_LIB_DIR"
                 with-lapack="-L$ATLAS_LIB_DIR -llapack -lcblas"
@@ -34,22 +33,20 @@
                 export BLAS=$LAPACK_LIB_DIR/libblas.a &amp;&amp; 
                 export LAPACK=$LAPACK_LIB_DIR/liblapack.a &amp;&amp; 
                 export ATLAS=$ATLAS_LIB_DIR/libatlas.a &amp;&amp; 
-
-
-                <action type="set_environment_for_install">
-                    <repository changeset_revision="1301ec7705a8" name="package_readline_6_2" owner="boris" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu/">
-                        <package name="readline" version="6.2" />
-                    </repository>
+LD_LIBRARY_PATH
+                -->
+                <action type="shell_command">
+                    export LD_LIBRARY_PATH=$READLINE_LIB_PATH &amp;&amp; 
+                    ./configure --with-lapack="-L$ATLAS_LIB_DIR -llapack -lcblas" --with-blas="$LAPACK_LIB_DIR" --enable-R-shlib  --with-x=no --with-readline=yes --prefix=$INSTALL_DIR &amp;&amp; make &amp;&amp; make install
                 </action>
-                -->
-                <action type="shell_command">./configure  --enable-R-shlib  --with-x=no --with-readline=no --prefix=$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>
                     <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/lib/R/bin</environment_variable>
+                    <environment_variable action="append_to" name="LD_LIBRARY_PATH">$INSTALL_DIR/lib/R/lib</environment_variable>
                 </action>
             </actions>
         </install>
-        <readme></readme>
+        <readme />
     </package>
 </tool_dependency>