# HG changeset patch
# User dpryan79
# Date 1473768006 14400
# Node ID 831f8397a4242d261d83a5ca846589182adc1f37
# Parent  18776a266ed9f8fabed41dcd5917cd86211eba8d
Uploaded

diff -r 18776a266ed9 -r 831f8397a424 tool_dependencies.xml
--- a/tool_dependencies.xml	Tue Sep 13 07:52:51 2016 -0400
+++ b/tool_dependencies.xml	Tue Sep 13 08:00:06 2016 -0400
@@ -17,14 +17,12 @@
                         <package name="python" version="2.7.10" />
                     </repository>
                 </action>
-                <action type="shell_command">git clone https://github.com/brentp/bwa-meth</action>
-                <action type="shell_command">cd bwa-meth &amp;&amp; git reset --hard 7dfec747105b9fa2cf1678bf5f67e860a0155d0e</action>
                 <action type="set_environment">
                     <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
                     <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR</environment_variable>
                 </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="shell_command">git clone https://github.com/brentp/bwa-meth &amp;&amp; cd bwa-meth &amp;&amp; git reset --hard 7dfec747105b9fa2cf1678bf5f67e860a0155d0e &amp;&amp; python setup.py install --install-lib $INSTALL_DIR/lib/python --install-scripts $INSTALL_DIR/bin</action>
              </actions>
          </install>
          <readme>