debian/changelog

+htseq (0.11.2-2) unstable; urgency=medium
+
+  * Drop Python2 support
+    targeting bug #936711
+  * debhelper-compat 12
+  * Standards-Version: 4.4.1
+  * Use secure URI in Homepage field.
+  * Set upstream metadata fields: Repository.
+
+ -- Andreas Tille <tille@debian.org>  Tue, 08 Oct 2019 16:53:00 +0200
+
 htseq (0.11.2-1) unstable; urgency=medium
 
   * New upstream version

debian/compat

-12

debian/control

@@ -5,13 +5,8 @@ Uploaders: Diane Trout <diane@ghic.org>,
 Section: python
 Testsuite: autopkgtest-pkg-python
 Priority: optional
-Build-Depends: debhelper (>= 12~),
-               python-debian,
-               python-setuptools,
-               python-all-dev,
-               python-numpy,
-               python-matplotlib,
-               python-pysam,
+Build-Depends: debhelper-compat (= 12),
+               dh-python,
                python3-debian,
                python3-setuptools,
                python3-all-dev,
@@ -19,31 +14,11 @@ Build-Depends: debhelper (>= 12~),
                python3-matplotlib,
                python3-pysam,
                swig,
-               cython,
                cython3
-Standards-Version: 4.3.0
+Standards-Version: 4.4.1
 Vcs-Browser: https://salsa.debian.org/med-team/htseq
 Vcs-Git: https://salsa.debian.org/med-team/htseq.git
-Homepage: http://www-huber.embl.de/users/anders/HTSeq/doc/overview.html
-
-Package: python-htseq
-Architecture: any
-Depends: ${misc:Depends},
-         ${python:Depends},
-         ${shlibs:Depends}
-Description: Python high-throughput genome sequencing read analysis utilities
- HTSeq can be used to performing a number of common analysis tasks
- when working with high-throughput genome sequencing reads:
- .
-   * Getting statistical summaries about the base-call quality scores to
-     study the data quality.
-   * Calculating a coverage vector and exporting it for visualization in
-     a genome browser.
-   * Reading in annotation data from a GFF file.
-   * Assigning aligned reads from an RNA-Seq experiments to exons and
-     genes.
- .
- This package contains the Python 2 module.
+Homepage: https://www-huber.embl.de/users/anders/HTSeq/doc/overview.html
 
 Package: python3-htseq
 Architecture: any

debian/rules

@@ -8,7 +8,7 @@ export http_proxy=http://127.0.9.1:9
 export DEB_BUILD_MAINT_OPTIONS=hardening=+all
 
 %:
-	dh $@ --with python2,python3 --buildsystem=pybuild
+	dh $@ --with python3 --buildsystem=pybuild
 
 override_dh_auto_clean:
 	dh_auto_clean
@@ -17,8 +17,3 @@ override_dh_auto_clean:
 	for link in 'src' 'HTSeq' 'doc' 'scripts' 'test' ; do \
 	  if [ -L $${link} ] ; then rm $${link} ; fi \
 	done
-
-override_dh_install:
-	dh_install
-	# binaries should be only in python3 package
-	rm -rf debian/python-$(PYBUILD_NAME)/usr/bin
\ No newline at end of file

debian/upstream/metadata

@@ -17,3 +17,4 @@ Registry:
   Entry: htseq
 - Name: SciCrunch
   Entry: SCR_005514
+Repository: https://github.com/simon-anders/htseq