Makefile.in

prefix         = @prefix@
exec_prefix    = @exec_prefix@
bindir         = @bindir@
enable_versioned_dirs = @ac_enable_versioned@

ifeq ($(enable_versioned_dirs), no)
	VERSION=
else
	VERSION := $(shell cat VERSION)
endif

export VERSION

include Makefile.settings

MODULES = corrector dalign db lib.python scripts scrub touring utils msa patcher experimental hic

.PHONY: all
all: prebuild
	for dir in $(MODULES); do \
		if [ -d ./$$dir ]; then \
			$(MAKE) -C $$dir $@ ; \
		fi	\
	done

.PHONY: clean
clean:
	for dir in $(MODULES); do \
		if [ -d ./$$dir ]; then \
			$(MAKE) -C $$dir $@ ; \
		fi	\
	done

.PHONY: install
install:
	$(INSTALL_PROGRAM) -d $(install_bin)
	$(INSTALL_PROGRAM) -d $(install_scripts)
	$(INSTALL_PROGRAM) -d $(install_python)
	for dir in $(MODULES); do \
		if [ -d ./$$dir ]; then \
			$(MAKE) -C $$dir $@ ; \
		fi	\
	done

ifeq ($(enable_versioned_dirs), yes)
	rm -f $(bindir) $(prefix)/scripts $(prefix)/lib.python
	ln -s $(install_bin) $(bindir)
	ln -s $(install_scripts) $(prefix)/scripts
	ln -s $(install_python) $(prefix)/lib.python
	echo "$(VERSION)" > $(prefix)/VERSION

	@echo "---------------------------------------------------------------"
	@echo "Versioned installation into $(prefix)/$(VERSION) finished."
	@echo "Symlinks in $(prefix) created."
	@echo "Don't forget to include $(prefix)/lib.python in your PYTHONPATH."
	@echo "---------------------------------------------------------------"
else
	@echo "---------------------------------------------------------------"
	@echo "Installation into $(prefix) finished."
	@echo "Don't forget to include $(prefix)/lib.python in your PYTHONPATH."
	@echo "---------------------------------------------------------------"
endif


prebuild: lib/oflags.h
	build/oflags.sh lib/oflags.h lib.python/marvel/oflags.py
	build/version.sh

Makefile: Makefile.in config.status Makefile.settings.in
	./config.status $@

config.status: configure
	./config.status --recheck