debian/README.test

+Notes on how this package can be tested.
+────────────────────────────────────────
+
+This package can be tested by running the provided test:
+
+    sh run-unit-test
+
+in order to confirm its integrity.

debian/bedtools.docs

 README.md
+debian/README.test
+debian/tests/run-unit-test

debian/changelog

+bedtools (2.27.1+dfsg-2) UNRELEASED; urgency=medium
+
+  * Install autopkgtest script as /usr/share/doc/bedtools/run-unit-test
+  * Point Vcs fields to salsa.debian.org
+
+ -- Andreas Tille <tille@debian.org>  Thu, 05 Apr 2018 09:00:44 +0200
+
 bedtools (2.27.1+dfsg-1) unstable; urgency=medium
 
   * New upstream version

debian/control

@@ -9,8 +9,8 @@ Build-Depends: debhelper (>= 11~),
                zlib1g-dev,
                samtools
 Standards-Version: 4.1.3
-Vcs-Browser: https://anonscm.debian.org/cgit/debian-med/bedtools.git
-Vcs-Git: https://anonscm.debian.org/git/debian-med/bedtools.git
+Vcs-Browser: https://salsa.debian.org/med-team/bedtools
+Vcs-Git: https://salsa.debian.org/med-team/bedtools.git
 Homepage: https://github.com/arq5x/bedtools2
 
 Package: bedtools

debian/tests/control

-Tests: upstream
+Tests: run-unit-test
 Depends: @, samtools, tabix
 Restrictions: allow-stderr

debian/tests/upstream → debian/tests/run-unit-test

@@ -5,15 +5,21 @@ if [ "$ADTTMP" = "" ] ; then
   trap "rm -rf $ADTTMP" 0 INT QUIT ABRT PIPE TERM
 fi
 
+set -x
 # Copy test suite there
 cp -a /usr/share/bedtools/test $ADTTMP
 
 # Link to genomes files
 cd $ADTTMP
+
 ln -s /usr/share/bedtools/genomes
 
 # Enter the directory and run the tests
 cd $ADTTMP/test
+# Test script is seeking for lower case dir
+if [ -d groupBy ] ; then
+  ln -s groupBy groupby
+fi
 DATA=/usr/share/bedtools/data BT=/usr/bin/bedtools sh test.sh | tee test.sh.output
 
 # Did it fail ?