# HG changeset patch
# User jmchilton
# Date 1375842891 14400
# Node ID 23c36a09170cd5a0af9be33f187dc06821b94ee2
# Parent  ef70fce1bcdc3ffa136476ef75dc3daed691a632
Uploaded

diff -r ef70fce1bcdc -r 23c36a09170c tool_dependencies.xml
--- a/tool_dependencies.xml	Tue Aug 06 21:47:55 2013 -0400
+++ b/tool_dependencies.xml	Tue Aug 06 22:34:51 2013 -0400
@@ -3,17 +3,26 @@
     <package name="tophat2" version="2.0.8b">
         <install version="1.0">
             <actions>
-              <action type="cloudbiolinux_install" cbl_url="https://github.com/jmchilton/cloudbiolinux.git" tool_name="tophat2" tool_version="2.0.8b" />
+              <action type="cloudbiolinux_install" cbl_revision="4bd005355991a5c8b855ea790ae75e8178ede8c1" tool_name="tophat2" tool_version="2.0.8b" />
             </actions>
         </install>
         <readme>
           Tophat2
         </readme>
     </package>
+    <package name="tophat" version="1.3.3">
+        <install version="1.0">
+            <actions>
+              <action type="cloudbiolinux_install" /> <!-- Grab package name and version from package statement. -->
+            </actions>
+        </install>
+        <readme>TopHat 1.3.3.
+        </readme>
+    </package>
     <package name="cufflinks2" version="2.1.1">
         <install version="1.0">
             <actions>
-              <action type="cloudbiolinux_install" cbl_url="https://github.com/jmchilton/cloudbiolinux.git" tool_name="tophat2" tool_version="2.1.1" />
+              <action type="cloudbiolinux_install" cbl_url="https://github.com/jmchilton/cloudbiolinux.git" tool_name="cufflinks2" tool_version="2.1.1" />
             </actions>
         </install>
         <readme>