Mercurial > repos > yhoogstrate > varscan_mpileup2snp_from_bam

changeset 14:04fa4c3955f7

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Uploaded
author yhoogstrate
date Thu, 30 Jan 2014 08:12:26 -0500
parents 324717caecb8
children f72eae8bad77
files tool_dependencies.xml
diffstat 1 files changed, 1 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/tool_dependencies.xml	Thu Jan 30 08:06:18 2014 -0500
+++ b/tool_dependencies.xml	Thu Jan 30 08:12:26 2014 -0500
@@ -21,8 +21,7 @@
 	<package name="VarScan" version="2.3.6">
 		<install version="1.0">
 			<actions>
-				<action type="shell_command">wget http://downloads.sourceforge.net/project/varscan/VarScan.v2.3.6.jar</action>
-				<action type="shell_command">cp VarScan.v2.3.6.jar ../</action>
+				<action type="shell_command">wget http://downloads.sourceforge.net/project/varscan/VarScan.v2.3.6.jar --output-file="VarScan/VarScan.v2.3.6.jar"</action>
 				<action type="move_file">
 					<source>VarScan.v2.3.6.jar</source>
 					<destination>$INSTALL_DIR/bin</destination>