debian/changelog

+porechop (0.2.3+dfsg-2) unstable; urgency=medium
+
+  * Team upload.
+  * Properly use the dh_python3 options to override its behaviour, instead
+    of being clever with it.
+  * Build only for the default Python3 version.
+    The software can't cope with being placed in odd places, so can't use
+    the multiple python version support that Debian has.
+  * Build the package using pybuild.
+    + Move all the files to the usual location for Python3 software.
+    + Install the entry point directly in /usr/bin instead of symlinking.
+    + Explicitly disable the tests (that before weren't even tried).
+  * Set Rules-Requires-Root:no.
+
+ -- Mattia Rizzolo <mattia@debian.org>  Thu, 27 Sep 2018 11:49:55 +0200
+
 porechop (0.2.3+dfsg-1) unstable; urgency=medium
 
   * Initial release (Closes: #890112)

debian/control

@@ -6,18 +6,20 @@ Section: science
 Priority: optional
 Build-Depends: debhelper (>= 11~),
                dh-python,
-               python3-all-dev,
-               libseqan2-dev
+               libseqan2-dev,
+               python3-dev,
+               python3-setuptools
 Standards-Version: 4.2.1
+Rules-Requires-Root: no
 Vcs-Browser: https://salsa.debian.org/med-team/porechop
 Vcs-Git: https://salsa.debian.org/med-team/porechop.git
 Homepage: https://rrwick.github.io/Porechop
 
 Package: porechop
 Architecture: any
-Depends: ${shlibs:Depends},
-         ${misc:Depends},
-         ${python3:Depends}
+Depends: ${misc:Depends},
+         ${python3:Depends},
+         ${shlibs:Depends}
 Description: adapter trimmer for Oxford Nanopore reads
  Porechop is a tool for finding and removing adapters from Oxford
  Nanopore reads. Adapters on the ends of reads are trimmed off, and

debian/install

-porechop/*.py		usr/lib/porechop/porechop
-porechop/*.so		usr/lib/porechop/porechop
-porechop-runner.py	usr/lib/porechop
+porechop-runner.py usr/bin

debian/links

-usr/lib/porechop/porechop-runner.py	usr/bin/porechop

debian/rules

@@ -4,15 +4,15 @@
 
 export DEB_BUILD_MAINT_OPTIONS=hardening=+all
 
-include /usr/share/dpkg/default.mk
+# FIXME - never enabled, tests fail, to be investigated
+export PYBUILD_DISABLE=test
 
 %:
-	dh $@ --with python3
+	dh $@ --with python3 --buildsystem pybuild
 
 override_dh_python3:
-	dh_python3
-	# for some very strange reason dh_python3 is renaming cpp_functions.so to cpp_functions.cpython-36m-$(DEB_SOURCE).so
-	# Just revert this!
-	mv debian/$(DEB_SOURCE)/usr/lib/$(DEB_SOURCE)/$(DEB_SOURCE)/cpp_functions*.so debian/$(DEB_SOURCE)/usr/lib/$(DEB_SOURCE)/$(DEB_SOURCE)/cpp_functions.so
-	# Did everything worked???
-	find . -name "*.so"
+	dh_python3 --no-ext-rename
+
+override_dh_install:
+	dh_install
+	mv -v debian/porechop/usr/bin/porechop-runner.py debian/porechop/usr/bin/porechop