Commit 01c6541c authored by Liubov Chuprikova's avatar Liubov Chuprikova
Browse files

Modify debian/rules

parent edaf725c

debian/control

+0 −1
Original line number Diff line number Diff line
@@ -9,7 +9,6 @@ Build-Depends: debhelper (>= 11~), 
               python3-setuptools,

               default-jdk,

               bowtie2,

               freebayes,

               ncbi-blast+,

               pilon,

               racon,

debian/rules

+12 −19
Original line number Diff line number Diff line
@@ -2,7 +2,16 @@ 


# DH_VERBOSE := 1



export PYBUILD_NAME=unicycler

# NOTE: All build steps are described in setup.py:UnicyclerInstall



# copy all nacessary data before testing and make clean after the testing

export PYBUILD_BEFORE_TEST=cp -a unicycler-runner.py {build_dir}; \

	cp -a unicycler/cpp_functions.so {build_dir}/unicycler; \

	cp -r sample_data {build_dir}

export PYBUILD_AFTER_TEST=rm {build_dir}/unicycler-runner.py; \

	rm -r {build_dir}/sample_data; \

	rm -r {build_dir}/unicycler/__pycache__





# Build time tests are flaky

export DH_BUILD_MAINT_OPTIONS=nocheck
@@ -15,27 +24,11 @@ include /usr/share/dpkg/default.mk 
	dh $@ --with python3 --buildsystem=pybuild



override_dh_auto_clean:

	echo "Avoid:  command 'UnicyclerClean' has no such option 'all'"

	find . -name "*.o" -delete

	find . -name "*.so" -delete

	find . -name __pycache__ -type d | xargs rm -rf

	rm -rf .pybuild unicycler.egg-info

	make distclean



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) ; \

	for bp in .pybuild/cpython*$(DEB_SOURCE)/build ; do \

	    ln -s $(CURDIR)/sample_data $${bp} ; \

	    ln -s $(CURDIR)/unicycler-runner.py $${bp} ; \

	    cp -a unicycler/*.so $${bp}/$(PYBUILD_NAME) ; \

	done ; \

	PYTHONPATH=$${BUILDPATH}/$(PYBUILD_NAME) dh_auto_test # || true

	dh_auto_build



override_dh_link:

	dh_link