# HG changeset patch
# User jeremie
# Date 1403185102 14400
# Node ID c8bdd88ddbbaa82201d01dbbd7775c6fa9f91ff5
# Parent  83fe7d36a64da26ba84a48504c43dd77819e0578
Uploaded

diff -r 83fe7d36a64d -r c8bdd88ddbba tool_dependencies.xml
--- a/tool_dependencies.xml	Thu Jun 19 09:30:16 2014 -0400
+++ b/tool_dependencies.xml	Thu Jun 19 09:38:22 2014 -0400
@@ -7,8 +7,12 @@
 		<install version="1.0">
 			<actions>
 				<action type="download_by_url" target_filename="pindel-master.zip">https://github.com/genome/pindel/archive/master.zip</action>
-				<!--<action type="shell_command">unzip pindel-master.zip -d pindel</action>-->
-				<action type="shell_command">cd pindel-master</action>
+				<action type="move_directory_files">
+					<source_directory>.</source_directory>
+					<destination_directory>$INSTALL_DIR</destination_directory>
+				</action>
+				<action type="shell_command">unzip pindel-master.zip -d pindel</action>-->
+				<action type="shell_command">cd pindel</action>
 				<action type="shell_command">make SAMTOOLS=~/samtools</action> 
 				<action type="move_file">
 					<source>pindel</source>