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#!/usr/bin/make -f
# This package is maintained by the Debian Med packaging team. Please refer to
# our group policy if you would like to commit to our Subversion repository. All
# Debian developpers have write acces to it.
#
# http://debian-med.alioth.debian.org/docs/policy.html
include /usr/share/cdbs/1/rules/debhelper.mk
# include /usr/share/cdbs/1/rules/patchsys-quilt.mk
include /usr/share/cdbs/1/class/makefile.mk
DEB_MAKE_BUILD_TARGET = --directory src
pkg=last-align
version=$(shell dpkg-parsechangelog -ldebian/changelog | grep Version: | cut -f2 -d' ' | cut -f1 -d- )
mandir=$(CURDIR)/debian/$(pkg)/usr/share/man/man1/
clean::
$(RM) src/lastdb src/lastal src/*.o
binary-fixup/$(pkg)::
prename 's/.py$$//' debian/$(pkg)/usr/bin/*py
prename 's/.sh$$//' debian/$(pkg)/usr/bin/*sh
mv debian/$(pkg)/usr/share/doc/$(pkg)/ChangeLog.txt.gz debian/$(pkg)/usr/share/doc/$(pkg)/changelog.gz
# try to create man pages whereever possible
build/$(pkg)::
mkdir -p $(mandir)
help2man --no-info --name='make a dotplot, a.k.a. Oxford Grid, of alignments in LAST tabular format' \
--version-string="$(version)" \
$(CURDIR)/scripts/last-dotplot.py > $(mandir)/last-dotplot.1
help2man --no-info --name="genome-scale comparison of biological sequences" \
--version-string="$(version)" --help-option="-h" \
$(CURDIR)/src/lastal > $(mandir)/lastal.1
help2man --no-info --name="genome-scale comparison of biological sequences" \
--version-string="$(version)" --help-option="-h" \
$(CURDIR)/src/lastdb > $(mandir)/lastdb.1
help2man --no-info --version-string="$(version)" \
--name="Sort MAF-format alignments by sequence name" \
$(CURDIR)/scripts/maf-sort.sh > $(mandir)/maf-sort.1
help2man --no-info --version-string="$(version)" \
--name="changes the order of the sequences in MAF-format alignments" \
$(CURDIR)/scripts/maf-swap.py > $(mandir)/maf-swap.1
help2man --no-info --version-string="$(version)" \
--name="converts MAF-format alignments to a human-friendly HTML format" \
$(CURDIR)/scripts/maf2html.py > $(mandir)/maf2html.1
help2man --no-info --version-string="$(version)" \
--name="Add extra column with mapping probabilities" \
$(CURDIR)/scripts/last-map-probs.py > $(mandir)/last-map-probs.1
help2man --no-info --version-string="$(version)" \
--name="Clean up MAF-format alignments" \
$(CURDIR)/scripts/last-reduce-alignments.sh > $(mandir)/last-reduce-alignments.1
help2man --no-info --version-string="$(version)" \
--name='Remove MAF-format alignments which are "dominated" by others' \
$(CURDIR)/scripts/last-remove-dominated.py > $(mandir)/last-remove-dominated.1
help2man --no-info --version-string="$(version)" \
--name="Join two or more sets of MAF-format multiple alignments" \
$(CURDIR)/scripts/maf-join.py > $(mandir)/maf-join.1
help2man --no-info --version-string="$(version)" \
--name="Convert MAF-format alignments to tabular format" \
$(CURDIR)/scripts/maf-convert.py > $(mandir)/maf-convert.1
# The unzip command from the unzip package is needed for this one.
# Please update debian/changelog before calling this target.
get-orig-source:
[ -f ../last-$(DEB_UPSTREAM_VERSION).zip ] || uscan --force-download
unzip ../last-$(DEB_UPSTREAM_VERSION).zip -d..
mv ../last-$(DEB_UPSTREAM_VERSION) ../last-$(DEB_UPSTREAM_VERSION).orig
GZIP="--best --no-name" tar --create --gzip --file ../$(pkg)_$(DEB_UPSTREAM_VERSION).orig.tar.gz ../last-$(DEB_UPSTREAM_VERSION).orig
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