debian/README.source

+TODO:
+
+The package builds nicely but should experience some additional love
+and testing. To mind come:
+    - reduce size of binaries by link-time optimization
+    - be nice and reduce the one or other compile time warning, some of which
+      are apparently in the Qt code?!?
+    - add runtime tests
+    - add a Debian Wiki page for the package
+
+ -- Steffen Moeller <moeller@debian.org>  Sat, 14 Dec 2019 12:56:14 +0100

debian/changelog

 ugene (33.0+dfsg-1) unstable; urgency=medium
 
+  [ Steffen Moeller ]
   * New upstream version.
-  * Standards-Version: 4.3.0 (no changes required)
+    Closes: #933334, #943514
+  * Standards-Version: 4.4.1 (no changes required)
   * Adjusted patches
     - Upstream now builds against regular sqlite almost by default
-    - UGENE_USE_BUNDLED_ZLIB=0 has remaining problems - changed default
-      to system sqlite by a patch
+    - changed default to system sqlite by a patch
     - Adjusted paths for dh_shlibdeps
-  * TODO: The package builds nicely but should experience some additional love
-          and testing. To mind come:
-    - reduce size of binaries by link-time optimization
-    - be nice and reduce the one or other compile time warning, some of which
-      are apparently in the Qt code?!?
-    - add runtime tests
-    - add a Debian Wiki page for the package
-
- -- Steffen Moeller <moeller@debian.org>  Sat, 14 Dec 2019 12:56:14 +0100
-
-ugene (1.31.1+dfsg1-1) UNRELEASED; urgency=medium
 
-  * Use UGENE_USE_BUNDLED_ZLIB=0
+  [ Andreas Tille ]
   * Remove psipred from upstream source - it is excluded from build anyway
   * d/watch: dversionmangle=auto (to accept +dfsg[0-9])
   * Add external plugins to Recommends as far as these are packaged
   * Clarification of license makes the whole code free
   * Drop Ivan Efremov <iefremov@unipro.ru> from Uploaders (thanks for your
     previous work on this package, Ivan)
+  * Use UGENE_USE_BUNDLED_ZLIB=0
+  * debhelper-compat 12
+  * Remove trailing whitespace in debian/changelog
+  * Remove trailing whitespace in debian/control
+  * Remove trailing whitespace in debian/copyright
+  * Set upstream metadata fields: Bug-Database, Bug-Submit.
 
- -- Andreas Tille <tille@debian.org>  Fri, 01 Feb 2019 09:14:17 +0100
+ -- Andreas Tille <tille@debian.org>  Thu, 09 Jan 2020 15:11:09 +0100
 
 ugene (1.31.1+dfsg-1) unstable; urgency=medium
 

debian/compat

-12

debian/control

@@ -16,7 +16,7 @@ Build-Depends: qtbase5-dev,
                qtchooser,
                qttools5-dev,
                zlib1g-dev,
-               debhelper (>= 12~),
+               debhelper-compat (= 12),
                libxtst-dev,
                libsqlite3-dev,
                libprocps-dev

debian/rules

@@ -13,8 +13,7 @@ export DEB_BUILD_MAINT_OPTIONS = hardening=+all
 
 override_dh_auto_configure:
 	# exclude non-free plugins
-	dh_auto_configure -- QMAKE_CFLAGS_ISYSTEM= QMAKE_CXXFLAGS_ISYSTEM= UGENE_WITHOUT_NON_FREE=1 UGENE_LRELEASE=lrelease-qt5 UGENE_LUPDATE=lupdate-qt5
-	#UGENE_USE_BUNDLED_ZLIB=0
+	dh_auto_configure -- QMAKE_CFLAGS_ISYSTEM= QMAKE_CXXFLAGS_ISYSTEM= UGENE_WITHOUT_NON_FREE=1 UGENE_LRELEASE=lrelease-qt5 UGENE_LUPDATE=lupdate-qt5 UGENE_USE_BUNDLED_ZLIB=0
 
 	find . -name Makefile.* | xargs -r sed -i '/STRIP/d'
 

debian/upstream/metadata

@@ -2,7 +2,7 @@ Reference:
 - Author: >
     Konstantin Okonechnikov and Olga Golosova and Mikhail Fursov
     and the UGENE team
-   Title: "Unipro UGENE: a unified bioinformatics toolkit"
+  Title: 'Unipro UGENE: a unified bioinformatics toolkit'
   Journal: Bioinformatics
   Year: 2012
   Volume: 28
@@ -11,8 +11,7 @@ Reference:
   DOI: 10.1093/bioinformatics/bts091
   PMID: 22368248
   URL: http://bioinformatics.oxfordjournals.org/content/28/8/1166
-   eprint: "http://bioinformatics.oxfordjournals.org/content/\
-    28/8/1166.full.pdf+html"
+  eprint: http://bioinformatics.oxfordjournals.org/content/28/8/1166.full.pdf+html
 - Author: >
     Olga Golosova1 and Ross Henderson and Yuriy Vaskin and Andrei
     Gabrielian and German Grekhov and Vijayaraj Nagarajan and Andrew
@@ -51,3 +50,5 @@ Registry:
   Entry: NA
 - Name: SciCrunch
   Entry: SCR_005579
+Bug-Database: https://github.com/ugeneunipro/ugene/issues
+Bug-Submit: https://github.com/ugeneunipro/ugene/issues/new