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#!/usr/bin/make -f
export DEB_BUILD_MAINT_OPTIONS = hardening=+all
include /usr/share/dpkg/default.mk
mandir := $(CURDIR)/debian/$(DEB_SOURCE)/usr/share/man/man1
utildir := $(CURDIR)/util
bindir := $(CURDIR)/src
include /usr/share/dpkg/architecture.mk
HELP2MAN = /usr/bin/help2man --no-info --version-string=${DEB_VERSION}
# FIXME: gmap seems to have all the cpuid control necessary to avoid baseline
# violation when compiled with high simd level (e.g. avx512bw) but running on
# low baseline CPU (e.g. sse4_2). The problem is that the build fails when
# attempting to compile high baseline on a build system with low baseline. It
# would be nice to be able to provide high simd level to high baseline CPU as
# well without build failure. See #1020793 for more details.
ifeq (amd64,$(DEB_HOST_ARCH))
SIMD = --enable-simd --with-simd-level=sse2
else
SIMD = --disable-simd
endif
%:
dh $@
override_dh_auto_configure:
dh_auto_configure -- --with-gmapdb=/var/cache/gmap \
--bindir=/usr/lib/gmap $(SIMD)
override_dh_auto_install:
mkdir -p $(mandir)
$(HELP2MAN) --name='Genomic Mapping and Alignment Program' \
$(bindir)/gmap |debian/filter.pl >$(mandir)/gmap.1
$(HELP2MAN) --name='Genomic Short-read Nucleotide Alignment Program' \
$(bindir)/gsnap |debian/filter.pl >$(mandir)/gsnap.1
$(HELP2MAN) --name='Tool for genome database creation for GMAP or GSNAP' \
$(utildir)/gmap_build |debian/filter.pl >$(mandir)/gmap_build.1
dh_auto_install
override_dh_install:
mkdir -p debian/$(DEB_SOURCE)/usr/bin
dh_install
for bin in `echo gmap gsnap gmap_build gmapl gsnapl; \
cd $(CURDIR)/debian/$(DEB_SOURCE)/usr/lib/$(DEB_SOURCE)/; \
ls -1 gmap*.* gsnap*.* `; do \
ln -s /usr/lib/gmap/$$bin debian/$(DEB_SOURCE)/usr/bin/$$bin; \
done
override_dh_auto_test:
ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))
dh_auto_test --no-parallel
endif
override_dh_installexamples:
mkdir $(CURDIR)/debian/$(DEB_SOURCE)/usr/share/doc/$(DEB_SOURCE)/examples
find tests/ -type f -print0 | xargs -0r sed -i \
-e 's@$(CURDIR)@«buildpath»@g' \
-e 's@\#! /bin/bash@\#! /bin/sh@g'
tar --sort=name \
--mtime="@${SOURCE_DATE_EPOCH}" \
--owner=root --group=root --numeric-owner \
--mode=go=rX,u+rw,a-s \
--exclude='*/align.log' \
--exclude='*/Makefile' \
--exclude='*/Makefile.in' \
-cJf $(CURDIR)/debian/$(DEB_SOURCE)/usr/share/doc/$(DEB_SOURCE)/examples/tests.tar.xz tests
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