# HG changeset patch
# User iuc
# Date 1429798239 14400
# Node ID 82ffa9e329880ff508b2ead32a73b1201d7c742a
# Parent  34b8e5cd74b6968bb7e600011e6df8fb108a56f1
Uploaded

diff -r 34b8e5cd74b6 -r 82ffa9e32988 tool_dependencies.xml
--- a/tool_dependencies.xml	Thu Apr 23 09:07:05 2015 -0400
+++ b/tool_dependencies.xml	Thu Apr 23 10:10:39 2015 -0400
@@ -1,25 +1,30 @@
 <?xml version="1.0"?>
 <tool_dependency>
-  <package name="numpy" version="1.9">
-      <repository changeset_revision="84e97f5cd3ab" name="package_numpy_1_9" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
+    <package name="numpy" version="1.9">
+       <repository changeset_revision="84e97f5cd3ab" name="package_numpy_1_9" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
     </package>
     <package name="nwalign" version="0.3.1">
-      <install version="1.0">
-          <actions>
-              <action type="download_by_url">https://pypi.python.org/packages/source/n/nwalign/nwalign-0.3.1.tar.gz</action>
+        <install version="1.0">
+            <actions>
+                <action type="download_by_url">https://pypi.python.org/packages/source/n/nwalign/nwalign-0.3.1.tar.gz</action>
+
                 <action type="set_environment_for_install">
-                  <repository changeset_revision="84e97f5cd3ab" name="package_numpy_1_9" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
-                      <package name="numpy" version="1.9" />
+                    <repository changeset_revision="84e97f5cd3ab" name="package_numpy_1_9" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
+                        <package name="numpy" version="1.9" />
                     </repository>
                 </action>
+
+
                 <action type="make_directory">$INSTALL_DIR/lib/python</action>
                 <action type="shell_command">
                     export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp; 
                     python setup.py install --install-lib $INSTALL_DIR/lib/python --install-scripts $INSTALL_DIR/bin
                 </action>
                 <action type="set_environment">
-                  <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
+                    <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
                     <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
+                    <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable>
+                    <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable>
                     <environment_variable action="set_to" name="NWALIGN_ROOT_PATH">$INSTALL_DIR</environment_variable>
                 </action>
             </actions>