# HG changeset patch
# User jeremie
# Date 1403862906 14400
# Node ID 0d03f1e09b95b1a352206d7b7745e1fa6be9bf61
# Parent  1218b14e265d99d8e37ebfdeca8a007943b35f97
Uploaded

diff -r 1218b14e265d -r 0d03f1e09b95 tool_dependencies.xml
--- a/tool_dependencies.xml	Fri Jun 27 05:49:00 2014 -0400
+++ b/tool_dependencies.xml	Fri Jun 27 05:55:06 2014 -0400
@@ -1,50 +1,21 @@
 <?xml version="1.0"?>
 <tool_dependency>
-	<package name="breakdancer" version="1.2.6">
-		<install version="1.0">
-			<actions>
-				<action type="download_by_url" target_filename="bin.tar.gz">https://www.dropbox.com/s/6fpm0vqmn0vu5m2/1_2_6.tar.gz?dl=1
-				</action>
-				<action type="move_directory_files">
-					<source_directory>bin</source_directory>
-					<destination_directory>$INSTALL_DIR/bin</destination_directory>
-				</action>
-				<!-- <action type="download_binary" target_directory="bin">
-					<url_template os="linux">https://www.dropbox.com/s/uu6i5m6ri32ogo9/breakdancer-max?dl=1</url_template>
-				</action>
-				<action type="download_binary" target_directory="bin">
-					<url_template os="linux">https://www.dropbox.com/s/owg7s479fyq8zps/bam2cfg.pl?dl=1</url_template>
-				</action>
-				<action type="download_binary" target_directory="bin">
-					<url_template os="linux">https://www.dropbox.com/s/4yj96h4srk0uaf7/breakdancer2vcf.py?dl=1</url_template>
-				</action>
-				<action type="shell_command">mv $INSTALL_DIR/bin/breakdancer-max?dl=1 $INSTALL_DIR/bin/breakdancer-max
-				</action> -->
-				<!-- <action type="move_file">
-					<source>$INSTALL_DIR/bin/breakdancer-max?dl=1</source>
-					<destination>$INSTALL_DIR/bin/breakdancer-max</destination>
-				</action>
-				<action type="move_file">
-					<source>$INSTALL_DIR/bin/bam2cfg.pl?dl=1</source>
-					<destination>$INSTALL_DIR/bin/bam2cfg.pl</destination>
-				</action>
-				<action type="move_file">
-					<source>$INSTALL_DIR/bin/breakdancer2vcf.py?dl=1</source>
-					<destination>$INSTALL_DIR/bin/breakdancer2vcf.py</destination>
-				</action>
-				<action type="chmod">
-					<file mode="750">$INSTALL_DIR/bin/*</file>
-				</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>
-			</actions>
-		</install>
-		<readme>
-		</readme>
-	</package>
+    <package name="breakdancer" version="1.2.6">
+        <install version="1.0">
+            <actions>
+                <action type="download_by_url" target_filename="bin.tar.gz">https://www.dropbox.com/s/6fpm0vqmn0vu5m2/1_2_6.tar.gz?dl=1
+                </action>
+                <action type="move_directory_files">
+                    <source_directory>.</source_directory>
+                    <destination_directory>$INSTALL_DIR/bin</destination_directory>
+                </action>
+                <action type="set_environment">
+                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
+                </action>
+            </actions>
+        </install>
+        <readme>
+        </readme>
+    </package>
 </tool_dependency>