debian/changelog

+hhsuite (3.0~beta3+dfsg-2) UNRELEASED; urgency=medium
+
+  * Team upload.
+  * Install context_data.crf (Thanks for the patch to Andrius Merkys
+    <andrius.merkys@gmail.com>)
+    Closes: #918765
+  * Add autopkgtest reproducing the issue of bug #918765
+  * debhelper 11
+  * Standards-Version: 4.3.0
+  * Secure URI in copyright format
+  * Remove trailing whitespace in debian/copyright
+  * Do not parse d/changelog
+
+ -- Andreas Tille <tille@debian.org>  Wed, 09 Jan 2019 08:43:24 +0100
+
 hhsuite (3.0~beta3+dfsg-1) unstable; urgency=medium
 
   [ Steffen Moeller ]

debian/compat

-10
+11

debian/control

@@ -5,14 +5,14 @@ Uploaders: Laszlo Kajan <lkajan@debian.org>,
            Sascha Steinbiss <satta@debian.org>
 Section: science
 Priority: optional
-Build-Depends: debhelper (>= 10),
+Build-Depends: debhelper (>= 11~),
                libffindex0-dev (>= 0.9.9.7+soedinglab),
                cmake,
                texlive-latex-base,
                texlive-latex-recommended,
                imagemagick,
                help2man
-Standards-Version: 4.2.0
+Standards-Version: 4.3.0
 Vcs-Browser: https://salsa.debian.org/med-team/hhsuite
 Vcs-Git: https://salsa.debian.org/med-team/hhsuite.git
 Homepage: https://toolkit.tuebingen.mpg.de/

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: hhsuite
 Upstream-Contact: Andreas Hauser <hauser@genzentrum.lmu.de>
                   Johannes Soeding <soeding@genzentrum.lmu.de>

debian/hhsuite-data.install

-usr/data/context_data.lib usr/share/hhsuite/data
+usr/data/context_data.* usr/share/hhsuite/data
 usr/data/cs219.lib usr/share/hhsuite/data
-usr/data/context_data.lib usr/lib/hhsuite/data
-usr/data/cs219.lib usr/lib/hhsuite/data

debian/hhsuite-data.links

 usr/share/hhsuite/data/context_data.lib	usr/lib/hhsuite/data/context_data.lib
+usr/share/hhsuite/data/context_data.crf	usr/lib/hhsuite/data/context_data.crf
 usr/share/hhsuite/data/cs219.lib	usr/lib/hhsuite/data/cs219.lib

debian/rules

@@ -6,9 +6,7 @@ export DEB_BUILD_MAINT_OPTIONS = hardening=+all
 #export DH_VERBOSE=1
 
 include /usr/share/dpkg/default.mk
-
-TIMESTAMP=$(shell dpkg-parsechangelog -STimestamp)
-DATE=$(shell date --date=@$(TIMESTAMP) '+%d %B %Y')
+DATE=$(shell date --date=@$(SOURCE_DATE_EPOCH) '+%d %B %Y')
 
 HHMANPAGES = hhalign.1 hhblits.1 hhblits_omp.1 hhconsensus.1 hhfilter.1 hhmake.1 hhsearch.1
 

debian/tests/control

+Tests: run-unit-test
+Depends: @
+Restrictions: allow-stderr

debian/tests/run-unit-test

+#!/bin/bash
+set -e
+
+pkg=hhsuite
+
+if [ "$AUTOPKGTEST_TMP" = "" ] ; then
+  AUTOPKGTEST_TMP=`mktemp -d /tmp/${pkg}-test.XXXXXX`
+  trap "rm -rf $AUTOPKGTEST_TMP" 0 INT QUIT ABRT PIPE TERM
+fi
+
+cp -a /usr/share/doc/${pkg}/examples/query.a3m.gz $AUTOPKGTEST_TMP
+
+cd $AUTOPKGTEST_TMP
+
+gunzip query.a3m.gz
+
+hhmake -i query.a3m