#!/usr/bin/make -f

DH_VERBOSE := 1

include /usr/share/dpkg/default.mk

export DEB_BUILD_MAINT_OPTIONS=hardening=+all

%:
	dh $@

override_dh_auto_build:
	dh_auto_build -- BOOST=/usr/include prefix=debian/tmp
	for prog in convert-sam-for-rsem rsem-calculate-expression \
		rsem-control-fdr rsem-generate-ngvector \
		rsem-plot-transcript-wiggles rsem-prepare-reference \
		rsem-run-ebseq; do pod2man $${prog} debian/$${prog}.1; done
	help2man ./rsem-gff3-to-gtf --no-info --version-string="$(DEB_VERSION_UPSTREAM)" \
		--name 'Convert GFF3 files to GTF files.' > \
		debian/rsem-gff3-to-gtf.1
	help2man ./rsem-bam2wig --no-info --version-string="$(DEB_VERSION_UPSTREAM)" \
		--name 'Convert BAM files to wiggle files.' > \
		debian/rsem-bam2wig.1
	help2man ./rsem-simulate-reads --no-info --version-string="$(DEB_VERSION_UPSTREAM)" \
		--name 'Simulate RNA-Seq data ("reads") for a given model and a RSEM reference transcript collection.' > \
		debian/rsem-simulate-reads.1

override_dh_auto_install:
	dh_auto_install -- BOOST=/usr/include prefix="/usr"

override_dh_install:
	dh_install
	for pl in `grep -Rl '#!/usr/bin/env[[:space:]]\+perl' debian/*/usr/*` ; do \
	    sed -i '1s?^#!/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' $${pl} ; \
	done