debian/changelog

-ipig (0.0.r5-3) UNRELEASED; urgency=medium
+ipig (0.0.r5-3) unstable; urgency=medium
 
+  [ Steffen Moeller ]
   * debian/upstream/metadata: Added refs to registries
 
- -- Steffen Moeller <moeller@debian.org>  Thu, 03 Aug 2017 13:37:12 +0200
+  [ Andreas Tille ]
+  * debhelper 11
+  * Point Vcs fields to salsa.debian.org
+  * Standards-Version: 4.1.4
+  * Java Policy conform versioning of JAR
+
+ -- Andreas Tille <tille@debian.org>  Wed, 04 Jul 2018 10:24:12 +0200
 
 ipig (0.0.r5-2) unstable; urgency=medium
 

debian/compat

-9
+11

debian/control

 Source: ipig
-Section: science
-Priority: optional
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Uploaders: Andreas Tille <tille@debian.org>
-Build-Depends: debhelper (>= 9),
-               javahelper (>=0.25),
+Section: science
+Priority: optional
+Build-Depends: debhelper (>= 11~),
+               javahelper,
                default-jdk,
                ant,
                libcommons-compress-java,
                libcommons-net-java,
                libjdom1-java,
                libxerces2-java
-Standards-Version: 3.9.5
-Vcs-Browser: http://anonscm.debian.org/gitweb/?p=debian-med/ipig.git
-Vcs-Git: git://anonscm.debian.org/debian-med/ipig.git
+Standards-Version: 4.1.4
+Vcs-Browser: https://salsa.debian.org/med-team/ipig
+Vcs-Git: https://salsa.debian.org/med-team/ipig.git
 Homepage: http://sourceforge.net/projects/ipig/
 
 Package: ipig
 Architecture: any
 Depends: ${misc:Depends},
-         ${java:Depends},
-Description: integrating PSMs into genome browser visualisations 
+         ${java:Depends}
+Description: integrating PSMs into genome browser visualisations
  iPiG targets the integration of peptide spectrum matches (PSMs) from
  mass spectrometry (MS) peptide identifications into genomic
  visualisations provided by genome browser such as the UCSC genome

debian/rules

@@ -2,7 +2,8 @@
 
 # DH_VERBOSE := 1
 
-SRC_VERSION =$(shell dpkg-parsechangelog | sed -ne 's/^Version: \(\([0-9]\+\):\)\?\(.*\)-.*/\3/p')
+include /usr/share/dpkg/default.mk
+#jarversion=$(shell echo $(DEB_VERSION_UPSTREAM) | sed 's/r//')
 
 export JAVA_HOME=/usr/lib/jvm/default-java
 
@@ -22,6 +23,11 @@ override_dh_install:
 
 override_dh_auto_build:
 	cp debian/build.xml build.xml
-	sed -i "s/DEBVERSION/"$(SRC_VERSION)"/g" build.xml
+#	sed -i "s/DEBVERSION/$(jarversion)/g" build.xml
+	sed -i "s/DEBVERSION/$(DEB_VERSION_UPSTREAM)/g" build.xml
 	dh_auto_build
-	
+
+#override_jh_installlibs:
+#	jh_installlibs
+#	mv debian/$(DEB_SOURCE)/usr/share/java/iPiG-$(DEB_VERSION_UPSTREAM).jar debian/$(DEB_SOURCE)/usr/share/java/iPiG-$(jarversion).jar
+#	ln -sf iPiG-$(jarversion).jar debian/$(DEB_SOURCE)/usr/share/java/iPiG.jar