# HG changeset patch
# User Jim Johnson <jj@umn.edu>
# Date 1351882042 18000
# Node ID 0ed800373b599cddebe328e37c8353c7ad63aeaf
# Parent  5b2009fcf2ad869bdf02a344598256b6744b55ea
Quote the tool_dependencies.xml GATK2_SITE_OPTIONS action text

diff -r 5b2009fcf2ad -r 0ed800373b59 tool_dependencies.xml
--- a/tool_dependencies.xml	Thu Nov 01 14:30:06 2012 -0500
+++ b/tool_dependencies.xml	Fri Nov 02 13:47:22 2012 -0500
@@ -19,7 +19,7 @@
                 </action>
                 <action type="set_environment">
                     <environment_variable name="GATK2_PATH" action="set_to">$INSTALL_DIR</environment_variable>
-                    <environment_variable name="GATK2_SITE_OPTIONS" action="set_to">--num_threads 4 --num_cpu_threads_per_data_thread 3 --phone_home STANDARD</environment_variable>
+                    <environment_variable name="GATK2_SITE_OPTIONS" action="set_to">"--num_threads 4 --num_cpu_threads_per_data_thread 3 --phone_home STANDARD"</environment_variable>
                 </action>
             </actions>
         </install>