debian/changelog

-beagle (5.0-180915+dfsg-2) UNRELEASED; urgency=medium
+beagle (5.0-180928+dfsg-1) UNRELEASED; urgency=medium
 
+  * New upstream release.
   * Fix watch file.
+  * Update my email.
 
- -- Dylan Aïssi <bob.dybian@gmail.com>  Thu, 20 Sep 2018 21:43:26 +0200
+ -- Dylan Aïssi <daissi@debian.org>  Tue, 02 Oct 2018 23:47:21 +0200
 
 beagle (5.0-180915+dfsg-1) unstable; urgency=medium
 

debian/control

 Source: beagle
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
-Uploaders: Dylan Aïssi <bob.dybian@gmail.com>
+Uploaders: Dylan Aïssi <daissi@debian.org>
 Section: science
 Priority: optional
 Build-Depends: debhelper (>= 11~),

debian/rules

@@ -8,7 +8,7 @@ export CLASSPATH=/usr/share/java/htsjdk.jar
 
 override_jh_build:
 	mkdir SRC/
-	cp -t SRC/ -r beagleutil blbutil bref haplotype imp main math phase sample vcf
+	cp -t SRC/ -r beagleutil blbutil bref haplotype imp ints main math phase sample vcf
 	jh_build --javacopts="-source 1.8" --javadoc-opts="-source 1.8" --main="main.Main" beagle.jar SRC/
 	jh_build --javacopts="-source 1.8" --javadoc-opts="-source 1.8" --main="bref.Bref3" bref3.jar SRC/
 

debian/upstream.docs/release_notes

@@ -46,3 +46,7 @@ Beagle 5.0 (10Sep18.879) release notes
 Beagle 5.0 (15Sep18.8a0) release notes
 =============================================
 * Fixed a bug appearing when analysis window has only one target marker
+
+Beagle 5.0 (28Sep18.793) release notes
+=============================================
+* Refactored several classes