# HG changeset patch
# User jeremie
# Date 1403793654 14400
# Node ID f732b9eebb6d892a27dc1ac44560ec27a7f70e30
# Parent  c4dedf91da30d7fec78f966b0033c51799f9a480
Uploaded

diff -r c4dedf91da30 -r f732b9eebb6d tool_dependencies.xml
--- a/tool_dependencies.xml	Thu Jun 26 10:34:16 2014 -0400
+++ b/tool_dependencies.xml	Thu Jun 26 10:40:54 2014 -0400
@@ -3,15 +3,16 @@
 	<package name="breakdancer-max" version="1.2.6">
 		<install version="1.0">
 			<actions>
-				<action type="shell_command">wget https://www.dropbox.com/s/uu6i5m6ri32ogo9/breakdancer-max</action>
+<!-- 				<action type="shell_command">wget https://www.dropbox.com/s/uu6i5m6ri32ogo9/breakdancer-max</action> -->
 				<action type="shell_command">ls</action>
 				<action type="shell_command">pwd</action>
+				<action type="shell_command">echo $REPOSITORY_INSTALL_DIR</action>
 				<!-- <action type="shell_command">unzip 1_2_6.zip</action>
 				<action type="shell_command">ls</action>
 				<action type="shell_command">pwd</action> -->
-				<action type="shell_command">cp breakdancer-max $INSTALL_DIR/bin</action>
-				<action type="shell_command">cp bam2cfg.pl $INSTALL_DIR/bin</action>
-				<action type="shell_command">cp breakdancer2vcf.py $INSTALL_DIR/bin</action>
+				<action type="shell_command">cp $REPOSITORY_INSTALL_DIR/breakdancer-max $INSTALL_DIR/bin</action>
+				<action type="shell_command">cp $REPOSITORY_INSTALL_DIR/bam2cfg.pl $INSTALL_DIR/bin</action>
+				<action type="shell_command">cp $REPOSITORY_INSTALL_DIR/breakdancer2vcf.py $INSTALL_DIR/bin</action>
 				<action type="set_environment">
 					<environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
 				</action>