--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Thu Oct 24 14:02:10 2013 -0400
@@ -0,0 +1,21 @@
+<?xml version="1.0"?>
+<tool_dependency>
+  <!--<package name="bowtie" version="1.0.0">
+    <repository name="package_bowtie_1_0_0" owner="iuc" />
+  </package>-->
+  <package name="sopra" version="1.4.6">
+    <install version="1.0">
+      <actions>
+        <action type="download_by_url">http://www.physics.rutgers.edu/~anirvans/SOPRA/SOPRA_v1.4.6.zip</action>
+        <action type="move_directory_files">
+          <source_directory>source_codes_v1.4.6/SOPRA_with_prebuilt_contigs</source_directory>
+          <destination_directory>$INSTALL_DIR/SOPRA_with_prebuilt_contigs</destination_directory>
+        </action>
+        <action type="shell_command">chmod 755 $INSTALL_DIR/SOPRA_with_prebuilt_contigs/*.pl</action>
+        <action type="set_environment">
+          <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/SOPRA_with_prebuilt_contigs</environment_variable>
+        </action>
+      </actions>
+    </install>
+  </package>
+</tool_dependency>