debian/control

@@ -11,7 +11,7 @@ Build-Depends: debhelper (>= 11~),
                bowtie2,
                freebayes,
                ncbi-blast+,
-               pilon,
+               pilon | pilon-non-free,
                racon,
                samtools,
                spades,

debian/rules

@@ -17,11 +17,14 @@ override_dh_auto_clean:
 	find . -name "*.o" -delete
 	find . -name "*.so" -delete
 	find . -name __pycache__ -type d | xargs rm -rf
+	rm -rf .pybuild unicycler.egg-info
 
 override_dh_auto_build:
 	dh_auto_build
 	# building the dynamic library requires extra make call
 	make
+	# for some reason it also needs to be manually moved
+	cp -a unicycler/cpp_functions.so `dirname $$(find .pybuild -name cpp_wrappers.py)`
 
 override_dh_auto_test:
 	BUILDPATH=$(shell pybuild --print build_dir --interpreter python3) ; \
@@ -29,3 +32,8 @@ override_dh_auto_test:
 	ln -s $(CURDIR)/unicycler-runner.py $${BUILDPATH} ; \
 	cp -a unicycler/*.so $${BUILDPATH}/$(PYBUILD_NAME) ; \
 	PYTHONPATH=$${BUILDPATH}/$(PYBUILD_NAME) dh_auto_test || true
+
+override_dh_link:
+	dh_link
+	# symlink versioned shared lib to make it found
+	ln -s `basename $$(find debian -name "cpp_functions*.so")` `dirname $$(find debian -name "cpp_functions*.so")`/cpp_functions.so