#!/usr/bin/make -f # Uncomment this to turn on verbose mode. # export DH_VERBOSE=1 export DEB_BUILD_MAINT_OPTIONS=hardening=+all # allow bashism's in commandlines SHELL = /bin/bash # variables to be used in configure invocation. see # autotools-dev/README.Debian.gz export DEB_HOST_GNU_TYPE ?= $(shell dpkg-architecture -qDEB_HOST_GNU_TYPE) export DEB_BUILD_GNU_TYPE ?= $(shell dpkg-architecture -qDEB_BUILD_GNU_TYPE) # use autoconf 2.52 or newer ifeq ($(DEB_BUILD_GNU_TYPE), $(DEB_HOST_GNU_TYPE)) confflags += --build $(DEB_HOST_GNU_TYPE) else confflags += --build $(DEB_BUILD_GNU_TYPE) --host $(DEB_HOST_GNU_TYPE) endif ## Build BLAST parsing script mcxdeblast and the pipeline script mclblastline ## (sources in src/alien/oxygen). It encapsulates all the stages of parsing, ## matrix creation, running mcl, and formatting the result ## into a single application. confflags += --enable-blast ## add --enable-tribe to confflags to add the upstreams supplied tribe tools ## (protein clustering stuff). This builds and installs the tools ## ## tribe-families tribe-matrix tribemcl tribe-parse ## ## We're not doing it since tribe-matrix segfaults, and the tools lackproper ## manpages. Furthermore, the BLAST parsing scripts can be used in place of ## the tribe module. # confflags += --enable-tribe ## If you really want to suppress the citation reference printed by MCL (the ## one which looks like ## ## Please cite: ## Stijn van Dongen, Graph Clustering by Flow Simulation. PhD thesis, ## University of Utrecht, May 2000. ## ( http://www.library.uu.nl/digiarchief/dip/diss/1895620/full.pdf ## or http://micans.org/mcl/lit/svdthesis.pdf.gz) ## OR ## Stijn van Dongen, A cluster algorithm for graphs. Technical ## Report INS-R0010, National Research Institute for Mathematics ## and Computer Science in the Netherlands, Amsterdam, May 2000. ## ( http://www.cwi.nl/ftp/CWIreports/INS/INS-R0010.ps.Z ## or http://micans.org/mcl/lit/INS-R0010.ps.Z) ## ## ), then this is the place to do it. Of course we honor the choice of ## upstream here, and build as suggested by upsteam. # confflags += --disable-helpful-reminder docbackupdir:=$(CURDIR)/debian/doc.bak %: dh $@ --with ocaml override_dh_clean: dh_clean find . -name "*.zmr" -delete find . -name "*.zmt" -delete rm -rf doc/*.1 doc/*.html doc/*-html doc/*.ps rm -rf src/alien/oxygen/doc/*.1 src/alien/oxygen/doc/*.html src/alien/oxygen/doc/*.ps override_dh_auto_build: #dh_auto_build autoreconf --install oasis setup ocaml setup.ml -all override_dh_auto_configure: dh_auto_configure -- $(confflags) override_dh_install: mv debian/tmp/usr/local/* debian/tmp/usr rm -rf debian/tmp/usr/local dh_install for pl in `grep -Rl '#![[:space:]]*/usr/bin/env[[:space:]]\+perl' debian/*/usr/*` ; do \ sed -i '1s?^#![[:space:]]*/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' $${pl} ; \ done override_dh_missing: # Remove duplicated doc (*.html) and doc we do not want (*.ps) rm -f debian/tmp/usr/share/doc/mcl/*.html \ debian/tmp/usr/share/doc/mcl/*.ps dh_missing