Makefile.common

.SUFFIXES:	.i .cc .c .so .o _wrap.o .py
.PHONY:	swig clean_subdirs subdirs $(SUBDIRS)

IncludeDirs = -I ~/script/ -I ~/script/vcflib/
BoostLib  = -lboost_program_options -lboost_iostreams
HDF5Lib  = -lhdf5_cpp -lhdf5 -L/usr/lib/x86_64-linux-gnu/hdf5/serial

## CXXTARGETS, CXXLDFLAGS, CTARGETS, CLDFLAGS, ExtraTargets will be defined in child Makefiles
#CXXTARGETS	=
#CXXStaticTargets	=
StaticStartFlags	= -Wl,--no-as-needed -Wl,-Bstatic -static-libgcc -static-libstdc++
StaticEndFlags	= -Wl,-Bdynamic -lz -lpthread -ldl
CXXFLAGS	= -fPIC -O3 -std=c++11 -Wl,--no-as-needed -I /usr/include/hdf5/serial
# -std=c++0x
# -std=c++11
# -std=gnu++11
CXXCOMPILER	= g++
CXXLDFLAGS	= $(HDF5Lib)

#CTARGETS	=
CFLAGS		= -fPIC -O2 -Wl,--no-as-needed
CCOMPILER	= gcc
#CLDFLAGS	=

#SharedLibTargets	=
SharedLibFlags	= -shared -fPIC

#StaticLibTargets	=

#ExtraTargets
#SRCS

all:	depend $(CXXStaticTargets) $(CXXTARGETS) $(CTARGETS) $(SharedLibTargets) $(StaticLibTargets) $(ExtraTargets) subdirs


$(StaticLibTargets):	%.a:	%.o
	-ar crfvs $@ $<

$(SharedLibTargets):	%.so:	%.o
	-$(CXXCOMPILER) $< $(SharedLibFlags) -o $@ $(CXXLDFLAGS)

#.o.so:
#	-$(CXXCOMPILER) $< $(SharedLibFlags) -o $@ $(CXXLDFLAGS)

$(CXXTARGETS):	%:	%.o
	-$(CXXCOMPILER) $< $(CXXFLAGS) -o $@ $(CXXLDFLAGS)

$(CXXStaticTargets):	%:	%.o
	-$(CXXCOMPILER) $< $(CXXFLAGS) -o $@ $(StaticStartFlags) $(CXXLDFLAGS) $(StaticEndFlags)

.cc.o:
	-$(CXXCOMPILER) $< $(CXXFLAGS) $(IncludeDirs) -c -o $@

$(CTARGETS):	%:	%.o
	-$(CCOMPILER) $< $(CFLAGS) -o $@ $(CLDFLAGS)

.c.o:
	-$(CCOMPILER) $< $(CFLAGS) $(IncludeDirs) -c -o $@

#.c:	$(wildcard ~/script/pymodule/include/*.h)
#.cc:	$(wildcard ~/script/pymodule/include/*.h)

### 2013.08.21 generate auto-dependency for each source code file through "gcc -MM". so that change of .h files would trigger re-compilation as well.

depend: .depend

.depend: $(SRCS)
	rm -f ./.depend
	-$(CXXCOMPILER) $^ $(CXXFLAGS) $(IncludeDirs) -MM >>./.depend;

include .depend


subdirs:
	for dir in $(SUBDIRS); do \
		$(MAKE) -C $$dir all; \
	done

clean_subdirs:
	for dir in $(SUBDIRS); do \
		$(MAKE) -C $$dir clean; \
	done

common_clean:
	rm -f ./.depend
	-rm *.h.gch
	-rm -f *.o *.so $(CXXStaticTargets) $(CXXTARGETS) $(CTARGETS) $(SharedLibTargets) $(StaticLibTargets) $(ExtraTargets)
#$(CXXTARGETS) $(CTARGETS) $(ExtraTargets) $(SharedLibTargets)

clean:	clean_subdirs common_clean