debian/beagle.install

 beagle.jar /usr/share/beagle/
 bref3.jar /usr/share/beagle/
+
+debian/local/bin/* /usr/bin/

debian/beagle.links

-/usr/share/beagle/beagle.jar usr/bin/beagle
-/usr/share/beagle/bref3.jar usr/bin/bref3
\ No newline at end of file

debian/changelog

+beagle (5.1-190824+dfsg-3) UNRELEASED; urgency=medium
+
+  [ Daniel Baumann ]
+  * Team upload.
+  * Provide wrapper script instead of symlinks to JARs
+    Closes: #940611
+
+  [ Andreas Tille ]
+  * Remove obsolete fields Name, Contact from debian/upstream/metadata.
+
+ -- Andreas Tille <tille@debian.org>  Tue, 17 Sep 2019 22:52:54 +0200
+
 beagle (5.1-190824+dfsg-2) unstable; urgency=medium
 
   * Fix autopkgtest tests.

debian/local/bin/beagle

+#!/bin/sh
+
+set -e
+
+exec java -jar /usr/share/beagle/beagle.jar ${@}

debian/local/bin/bref3

+#!/bin/sh
+
+set -e
+
+exec java -jar /usr/share/beagle/bref3.jar ${@}

debian/upstream/metadata

-Contact: Brian L. Browning <browning at uw.edu>
-Name: Beagle
 Reference:
   - Author: Sharon R. Browning and Brian L. Browning
     Title: >