debian/changelog

+python-dendropy (4.4.0-2) UNRELEASED; urgency=medium
+
+  * Drop Python2 support
+    targeting bug #937698
+  * debhelper-compat 12
+  * Standards-Version: 4.4.1
+  * Secure URI in copyright format
+  * Respect DEB_BUILD_OPTIONS in override_dh_auto_test target
+  * Use secure URI in Homepage field.
+
+ -- Andreas Tille <tille@debian.org>  Tue, 08 Oct 2019 09:01:44 +0200
+
 python-dendropy (4.4.0-1) unstable; urgency=medium
 
   * New upstream version

debian/compat

-11

debian/control

@@ -4,36 +4,14 @@ Uploaders: Andreas Tille <tille@debian.org>
 Section: python
 Testsuite: autopkgtest-pkg-python
 Priority: optional
-Build-Depends: debhelper (>= 11~),
+Build-Depends: debhelper-compat (= 12),
                dh-python,
-               python-all,
-               python-setuptools,
                python3-all,
                python3-setuptools
-Standards-Version: 4.1.4
+Standards-Version: 4.4.1
 Vcs-Browser: https://salsa.debian.org/med-team/python-dendropy
 Vcs-Git: https://salsa.debian.org/med-team/python-dendropy.git
-Homepage: http://dendropy.org/
-
-Package: python-dendropy
-Architecture: all
-Depends: ${shlibs:Depends},
-         ${misc:Depends},
-         ${python:Depends}
-Description: DendroPy Phylogenetic Computing Library (Python 2)
- DendroPy is a Python library for phylogenetic computing. It provides
- classes and functions for the simulation, processing, and manipulation
- of phylogenetic trees and character matrices, and supports the reading
- and writing of phylogenetic data in a range of formats, such as NEXUS,
- NEWICK, NeXML, Phylip, FASTA, etc. Application scripts for performing
- some useful phylogenetic operations, such as data conversion and tree
- posterior distribution summarization, are also distributed and installed
- as part of the library. DendroPy can thus function as a stand-alone
- library for phylogenetics, a component of more complex multi-library
- phyloinformatic pipelines, or as a scripting “glue” that assembles and
- drives such pipelines.
- .
- This package provides python2 modules.
+Homepage: https://dendropy.org/
 
 Package: python3-dendropy
 Architecture: all

debian/copyright

-Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
 Upstream-Contact: Jeet Sukumaran <jeetsukumaran@gmail.com>
 Upstream-Name: DendroPy
 Source: https://pypi.python.org/pypi/DendroPy

debian/rules

@@ -7,18 +7,19 @@ SUMTREES:=sumtrees
 export PYBUILD_NAME=dendropy
 
 %:
-	dh $@ --with python2,python3 --buildsystem=pybuild
+	dh $@ --with python3 --buildsystem=pybuild
 
 override_dh_auto_test:
+ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))
 	LC_ALL=en_US.utf-8 dh_auto_test || true
+	# FIXME
 	# need to add true since for Python 3.4 5 tests are failing due some
 	# strange encoding problem.  upstream is unable to verify this and
 	# there is no better idea for the moment
+endif
 
 override_dh_install:
 	dh_install
-	## FIXME: This needs to be clarified with python modules team
 	mkdir -p debian/$(SUMTREES)/usr/bin
 	mv debian/python3-$(PYBUILD_NAME)/usr/bin/sumtrees.py debian/$(SUMTREES)/usr/bin/sumtrees
-	rm -rf debian/python-$(PYBUILD_NAME)/usr/bin
 	rm -rf debian/python3-$(PYBUILD_NAME)/usr/bin