# HG changeset patch
# User jeremie
# Date 1403188746 14400
# Node ID 176476c2ce6f9f9fdfb9ae075c12b399ed80e69f
# Parent  9d540c67d88837f57cd5a600e612456a34e4353f
Uploaded

diff -r 9d540c67d888 -r 176476c2ce6f tool_dependencies.xml
--- a/tool_dependencies.xml	Thu Jun 19 10:30:16 2014 -0400
+++ b/tool_dependencies.xml	Thu Jun 19 10:39:06 2014 -0400
@@ -8,14 +8,14 @@
 			<actions>
 				<!-- <action type="shell_command">git clone https://github.com/genome/pindel.git pindel</action> -->
 				<action type="download_by_url" target_filename="pindel-master.zip">https://github.com/genome/pindel/archive/master.zip</action>
-				<!-- <action type="shell_command">ls</action>
-				<action type="move_directory_files">
+				<action type="shell_command">ls</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 master</action> -->
-				<action type="shell_command">make all SAMTOOLS=~/samtools</action>
+				<action type="shell_command">make all SAMTOOLS=~/samtools THREADS=2</action>
 				<!-- <action type="shell_command">./INSTALL ~/samtools</action>  -->
 				<action type="move_file">
 					<source>pindel</source>