From 1f8fc4a0410ec2cd054e9534b1e597e8af495d22 Mon Sep 17 00:00:00 2001
From: Khalid Shakir <kshakir@broadinstitute.org>
Date: Sat, 23 Jul 2011 14:40:29 -0400
Subject: [PATCH] Added edu.mit.broad.picard to Queue packaged jar. Added hack
 to workaround EDU.oswego namespace and staging on mac case-insensitive
 filesystems.

---
 build.xml                 | 6 ++++++
 public/packages/Queue.xml | 1 +
 2 files changed, 7 insertions(+)

diff --git a/build.xml b/build.xml
index fe4c7a3f4..874a003eb 100644
--- a/build.xml
+++ b/build.xml
@@ -957,6 +957,12 @@
     <!-- Unzip all classes from their current locations and assemble them in a staging directory -->
     <target name="stage" description="stage files for distribution">
         <mkdir dir="staging"/>
+        <!--
+            HACK: Create the edu directory before EDU on case-insensitive mac filesystems.
+            The ivy dependency colt -> concurrent contains an EDU.oswego package which
+            BCEL doesn't even pull in but messes up edu.mit.broad.
+          -->
+        <mkdir dir="staging/edu"/>
         <unjar dest="staging" overwrite="false">
           <fileset dir="${dist.dir}">
             <patternset refid="dependency.mask" />
diff --git a/public/packages/Queue.xml b/public/packages/Queue.xml
index 58da4398e..589cb45f5 100644
--- a/public/packages/Queue.xml
+++ b/public/packages/Queue.xml
@@ -41,6 +41,7 @@
 
             <!-- Picard -->
             <package name="net.sf.picard.**" />
+            <package name="edu.mit.broad.picard.**" />
 
             <!-- JavaMail -->
             <package name="javax.activation.**" />