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#!/usr/bin/make -f
DH_VERBOSE := 1
include /usr/share/dpkg/default.mk
export DEB_BUILD_MAINT_OPTIONS = hardening=+all
export CPPFLAGS=$(shell dpkg-buildflags --get CPPFLAGS)
export HTS_LDFLAGS=$(shell dpkg-buildflags --get LDFLAGS)
export GIT_VERSION=$(DEB_VERSION)
%:
dh $@ --buildsystem cmake
override_dh_clean:
dh_clean
find . -name "*.o" -delete
rm -f README.html build/
rm -rf contrib/filevercmp contrib/multichoose contrib/intervaltree
override_dh_auto_clean:
dh_auto_clean || true
override_dh_auto_configure:
cp -a debian/ext/* contrib/
dh_auto_configure -- -DOPENMP=ON -DCMAKE_BUILD_RPATH_USE_ORIGIN=ON -DZIG=OFF -DWFA_GITMODULE=OFF -DHTSLIB_FOUND=ON -DTABIX_FOUND=ON
override_dh_auto_build:
dh_auto_build
ifeq (,$(filter nodoc,$(DEB_BUILD_OPTIONS) $(DEB_BUILD_PROFILES)))
markdown README.md > README.html
endif
override_dh_auto_test:
ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))
cp obj-${DEB_HOST_GNU_TYPE}/CTestTestfile.cmake test/
ln -sf obj-${DEB_HOST_GNU_TYPE}/ build
cd test && ctest .
cd .. && rm -f build
endif
override_dh_install:
dh_install
find debian/lib* -name filevercmp.h -delete
cp -a debian/ext/filevercmp/filevercmp.h debian/libvcflib-dev/usr/include/vcflib/
mkdir -p debian/libvcflib-dev/usr/include/intervaltree
mv debian/libvcflib-dev/usr/include/vcflib/IntervalTree.h debian/libvcflib-dev/usr/include/intervaltree
# Remove un-needed py so, install in separate binary package when needed
find debian/ -name 'pyvcflib.cpython*.so' -delete
# install pkg-config file
mkdir -p $(CURDIR)/debian/libvcflib-dev/usr/lib/$(DEB_HOST_MULTIARCH)/pkgconfig
mv libvcflib.pc $(CURDIR)/debian/libvcflib-dev/usr/lib/$(DEB_HOST_MULTIARCH)/pkgconfig
rm -rf debian/*/usr/lib/vcflib/bin/*.R
# Argh, we can't use d-shlibmove since there is no static library
# Use this once this might be available.
# d-shlibmove --commit \
# --multiarch \
# --devunversioned \
# --exclude-la \
# --override s/libdisorder[0-9]*-dev/libdisorder-dev/ \
# --override s/libfastahack[0-9]*-dev/libfastahack-dev/ \
# --override s/libsmithwaterman[0-9]*-dev/libsmithwaterman-dev/ \
# --override s/libtabixpp[0-9]*-dev/libtabixpp-dev/ \
# --override s/libwfa2-[0-9]*-dev/libwfa2-dev/ \
# --movedev debian/ext/filevercmp/filevercmp.h debian/libvcflib-dev/usr/include/vcflib/ \
# --movedev debian/libvcflib-dev/usr/include/vcflib/IntervalTree.h debian/libvcflib-dev/usr/include/intervaltree \
# --movedev libvcflib.pc usr/lib/$(DEB_HOST_MULTIARCH)/pkgconfig \
# debian/tmp/usr/lib/*/*.so
# find debian -name "lib*.la" -delete
for pl in `grep -Rl '#!/usr/bin/env' debian/*/usr/*` ; do \
sed -i '1s?^#!/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' $${pl} ; \
done
override_dh_link:
dh_link
for rscript in debian/libvcflib-tools/usr/lib/vcflib/scripts/*.R ; do \
scriptname=$$(basename $$rscript) ; \
dh_link -p libvcflib-tools usr/lib/vcflib/scripts/$$scriptname usr/lib/R/site-library/vcflib/$$scriptname ; \
done
override_dh_fixperms:
dh_fixperms
chmod -x debian/*/usr/lib/vcflib/scripts/*.R
|
