debian/changelog

-python-pysam (0.14+ds-1) UNRELEASED; urgency=medium
+python-pysam (0.14+ds-1) unstable; urgency=medium
 
   * New upstream version
   * d/rules: Exclude tests using http access
@@ -7,8 +7,10 @@ python-pysam (0.14+ds-1) UNRELEASED; urgency=medium
   * debhelper 11
   * do not remove samtools/tmp_file.h in clean target
   * do not depend from non-existing data file in make test target
+  * Update d/copyright
+  * Update lintian overrides
 
- -- Andreas Tille <tille@debian.org>  Sat, 17 Feb 2018 15:24:34 +0100
+ -- Andreas Tille <tille@debian.org>  Sat, 17 Feb 2018 21:45:07 +0100
 
 python-pysam (0.13.0+ds-1) unstable; urgency=medium
 

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-Name: pysam
 Upstream-Contact: Andreas Heger <andreas.heger@gmail.com>
 Source: https://github.com/pysam-developers/pysam
 Files-Excluded: htslib/*
 
 Files: *
-Copyright: 2009-2016 Andreas Heger,
+Copyright: 2009-2018 Andreas Heger,
 	             Tildon Grant Belgrad,
 		     Martin Goodson,
 		     Kevin Jacobs <jacobs@bionformed.com>
@@ -14,7 +14,7 @@ License: MIT
 
 Files: bcftools/*
 Copyright:
-	2013-2015 Genome Research Ltd.
+	2013-2018 Genome Research Ltd.
 	2010-2011 Broad Institute
 License: MIT
 
@@ -39,10 +39,6 @@ Copyright: 2008-2014 Genome Research Ltd.
 	   2012-2013 Peter Cock, The James Hutton Institute
 License: MIT
 
-Files: samtools/kprobaln.c samtools/kprobaln.c.pysam.c samtools/kprobaln.h
-Copyright: 2003-2006, 2008-2010, by Heng Li <lh3lh3@live.co.uk>
-License: MIT
-
 Files: samtools/misc/ace2sam.*
 Copyright: 2011 Heng Li
 License: MIT
@@ -91,7 +87,7 @@ Copyright:
 	2015-2016 Afif Elghraoui <afif@debian.org>
 	2015 Jorge Soares <j.s.soares@gmail.com>
 	2014-2015 Charles Plessy <plessy@debian.org>
-	2014-2015 Andreas Tille <tille@debian.org>
+	2014-2018 Andreas Tille <tille@debian.org>
 License: MIT
 
 License: BSD-3-clause

debian/patches/execute-linking-tests-only-when-explicitely-reque.patch

 From: Andreas Heger <andreas.heger@gmail.com>
 Date: Mon, 18 Sep 2017 11:19:28 +0100
 Bug-Debian: https://bugs.debian.org/871083
-Subject: execute linking tests only when explicitely
+Subject: execute linking tests only when explicitly
  requested via PYSAM_LINKING_TESTS env var. Keep on travis. Fixes #534
 
 ---

debian/python-pysam-tests.lintian-overrides

@@ -2,4 +2,4 @@
 zero-byte-file-in-doc-directory usr/share/doc/python-pysam/tests/cbcf_data/example_empty.vcf
 zero-byte-file-in-doc-directory usr/share/doc/python-pysam/tests/tabix_data/empty.bed.gz
 # The duplicate is used for testing and needs to be there
-duplicated-compressed-file usr/share/doc/python-pysam/tests/pysam_data/ex1.fa.gz
+duplicated-compressed-file usr/share/doc/python-pysam/tests/tabix_data/example.bed.gz
\ No newline at end of file

debian/source/lintian-overrides

-# lintian seems to wild guess here from the package name but the test data are for python and python3
-python-pysam source: python-foo-but-no-python3-foo python-pysam-tests

debian/tests/control

 Test-Command: make -C tests/pysam_data && make -C tests/cbcf_data && pytest
-Depends:
-	@builddeps@,
-	python-pysam,
+Depends: @builddeps@, python-pysam
 Restrictions: allow-stderr, rw-build-tree
 
 Test-Command: make -C tests/pysam_data && make -C tests/cbcf_data && pytest-3
-Depends:
-	@builddeps@,
-	python3-pysam,
+Depends: @builddeps@, python3-pysam,
 Restrictions: allow-stderr, rw-build-tree