# HG changeset patch
# User devteam
# Date 1387290031 18000
# Node ID 0eb3d3c40344cc22afd72fb25a48fa683cdf2fc1
# Parent  7959322e3f4b4b2ff4ea5a4945b8ae94bdd8f22a
Uploaded updated tool dependency definition specifiying precompiled binaries.

diff -r 7959322e3f4b -r 0eb3d3c40344 tool_dependencies.xml
--- a/tool_dependencies.xml	Tue Feb 05 14:15:40 2013 -0500
+++ b/tool_dependencies.xml	Tue Dec 17 09:20:31 2013 -0500
@@ -2,19 +2,44 @@
 <tool_dependency>
     <package name="bwa" version="0.5.9">
         <install version="1.0">
-            <actions>
-                <action type="download_by_url">http://downloads.sourceforge.net/project/bio-bwa/bwa-0.5.9.tar.bz2</action>
-                <action type="shell_command">make</action>
-                <action type="move_file">
-                    <source>bwa</source>
-                    <destination>$INSTALL_DIR/bin</destination>
-                </action>
+            <actions_group>
+                <actions architecture="i386" os="linux">
+                    <action type="download_by_url">http://depot.galaxyproject.org/package/linux/i386/bwa/bwa-0.5.9-Linux-i686.tgz</action>
+                    <action type="move_directory_files">
+                        <source_directory>.</source_directory>
+                        <destination_directory>$INSTALL_DIR/bin</destination_directory>
+                    </action>       
+                </actions>                
+                <actions architecture="x86_64" os="linux">
+                    <action type="download_by_url">http://depot.galaxyproject.org/package/linux/x86_64/bwa/bwa-0.5.9-Linux-x86_64.tgz</action>
+                    <action type="move_directory_files">
+                        <source_directory>.</source_directory>
+                        <destination_directory>$INSTALL_DIR/bin</destination_directory>
+                    </action>       
+                </actions>                
+                <actions architecture="x86_64" os="darwin">
+                    <action type="download_by_url">http://depot.galaxyproject.org/package/darwin/x86_64/bwa/bwa-0.5.9-Linux-x86_64.tgz</action>
+                    <action type="move_directory_files">
+                        <source_directory>.</source_directory>
+                        <destination_directory>$INSTALL_DIR/bin</destination_directory>
+                    </action>       
+                </actions>                
+                <actions>
+                    <action type="download_by_url">http://downloads.sourceforge.net/project/bio-bwa/bwa-0.5.9.tar.bz2</action>
+                    <action type="shell_command">make</action>
+                    <action type="move_file">
+                        <source>bwa</source>
+                        <destination>$INSTALL_DIR/bin</destination>
+                    </action>
+                </actions>
                 <action type="set_environment">
                     <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
                 </action>
-            </actions>
+            </actions_group>
         </install>
         <readme>
+This is the last version of BWA that uses separate files for BWT and reverse BWT.
+
 Program: bwa (alignment via Burrows-Wheeler transformation)
 Version: 0.5.9-r16
 Contact: Heng Li &lt;lh3@sanger.ac.uk&gt;