# HG changeset patch
# User jeremie
# Date 1404224377 14400
# Node ID 89af7b353d56536fc712523a8452035e0ef65f5d
# Parent  82bc3a532efb4726a860dc3982d8925e2d9a3294
Uploaded

diff -r 82bc3a532efb -r 89af7b353d56 tool_dependencies.xml
--- a/tool_dependencies.xml	Tue Jul 01 06:25:52 2014 -0400
+++ b/tool_dependencies.xml	Tue Jul 01 10:19:37 2014 -0400
@@ -27,26 +27,10 @@
                     </action>
                     <!-- <action type="download_by_url">http://9ypffrj86h.1fichier.com/breakdancer2vcf.py</action> -->
                     <action type="shell_command">wget https://github.com/ALLBio/allbiotc2/blob/master/breakdancer/breakdancer2vcf.py</action>
-                    <action type="shell_command">ls</action>
-                    <action type="shell_command">pwd</action>
-                    <!-- <action type="change_directory">..</action>
-                    <action type="shell_command">ls</action>
-                    <action type="shell_command">pwd</action>
-                    <action type="change_directory">..</action>
-                    <action type="shell_command">ls</action>
-                    <action type="shell_command">pwd</action> -->
                     <action type="move_file">
                         <source>breakdancer2vcf.py</source>
                         <destination>$INSTALL_DIR/bin</destination>
                     </action>
-                    <!-- <action type="shell_command">ls</action>
-                    <action type="shell_command">pwd</action>
-                    <action type="change_directory">..</action>
-                    <action type="shell_command">ls</action>
-                    <action type="shell_command">pwd</action>
-                    <action type="change_directory">..</action>
-                    <action type="shell_command">ls</action>
-                    <action type="shell_command">pwd</action> -->
                     <!-- <action type="move_directory_files">
                         <source_directory>../../1_2_6</source_directory>
                         <destination_directory>$INSTALL_DIR/bin</destination_directory>
@@ -54,6 +38,9 @@
                     <action type="set_environment">
                         <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
                     </action>
+                    <action type="set_environment">
+                        <environment_variable name="BREAKDANCER_BIN" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
+                    </action>
                 </actions>                     
             </actions_group>
         </install>