Makefile.in

CXX=@CXX@
CC=@CC@
CXXFLAGS=@CXXFLAGS@ -I "@JAVAPATH@" -I "@JAVAPATH@/win32" -I.
LDLIBS=@LIBS@
LDFLAGS=@LDFLAGS@
CLASSPATH+=@CLASSPATH@
CPPFLAGS=@CPPFLAGS@
JAVADIR=@JAVAPATH@
VPATH=@srcdir@
LD=$(CXX)


STATIC_PART=-static-libgcc -Wl,-Bstatic -lcvd -ljpeg -lgvars3_headless -llapack -lblas -lgfortran -lstdc++
DYNAMIC_PART= -Wl,-Bdynamic -lpng -ltiff -lrt

ifeq ($(DYNAMIC_PLUGIN),1)
	PLUGIN_LIBS=-lcvd -lGVars3_headless -llapack
else
	PLUGIN_LIBS=-Wl,-Bstatic -lcvd -lGVars3_headless -llapack -lblas -lf2c  -Wl,-Bdynamic
endif

LDFLAGS_S=$(STATIC_PART) $(DYNAMIC_PART)
LDFLAGS_S=$(LDFLAGS) -static -lcvd -ljpeg -lGVars3_headless -llapack -lblas -lf2c -lpng -ltiff -lz 


PROGS=multispot5_headless three_B.jar libmultispot5_jni.so

.PHONY: all clean prog plugin

prog:multispot5_headless
plugin:three_B.jar libthreeB_jni.so

all:prog plugin

spot_viewer:spot_viewer.o utility.o storm_imagery.o storm_imagery_no_load.o
	$(CXX) -o $@ $^ $(LDFLAGS) 

basic_objs=multispot5.o utility.o mersenne.o multispot5_place_methods.o multispot5_place_methods.o multispot5_place_choice.o storm_imagery_no_load.o
multispot5_objs=$(basic_objs) storm_imagery.o

multispot5:multispot5_gui.o $(multispot5_objs)
	$(CXX) -o $@ $^ $(LDFLAGS)  $(LDLIBS)

multispot5_headless: multispot5_headless.o $(multispot5_objs)
	$(CXX) -o $@ $^ $(LDFLAGS)  $(LDLIBS)

multispot5_static: $(multispot5_objs) multispot5_headless.o
	$(CXX) -o $@ $^ $(LDFLAGS_S)
clean:
	rm -f $(PROGS) *.o jar/*.class ThreeBRunner.h three_B.jar libmultispot5_jni.so

make_grid_markup: make_grid_markup.o
	$(CXX) -o $@ $^ $(LDFLAGS)  $(LDLIBS)

make_grid_markup_static: make_grid_markup.o
	$(CXX) -o $@ $^ $(LDFLAGS_S)



#Magic incantation to get MinGW to build a DLL
MINGW=$(HOME)/mingw/lib/

# Under MinGW, libCVD etc build .a and .dll files. Windows can't link to 
# a .dll file without a corresponding .a file. The .a file built is just a normal
# static library, not the one used for linking .dlls. As a result, there are no
# linkable dlls built, so the static libraries are pulled in automatically.
#
threeB_jni.dll: multispot5_jni.o $(multispot5_objs)
	$(CXX) -static-libgcc -static-libstdc++ -Wall -D_JNI_IMPLEMENTATION_ -Wl,--kill-at  $^  -shared -o $@ $(LDFLAGS) $(LDLIBS)
	
	
	#$(MINGW)/liblapack.a $(MINGW)/libblas.a $(MINGW)/libcvd.a $(MINGW)/libGVars3_headless.a -lgfortran

vpath %.class jar/

multispot5_jni.o:ThreeBRunner.h

##Warning: this will only work if LAPACK, BLAS and F2C have been compiled as PIC
##It will also only work if there are no additional support libraries required
##
##CLAPACK:
##  Make sure you add -fPIC to the build line, in Linux
##  Make sure you compile with -DTOON_CLAPACK
libthreeB_jni.so:multispot5_jni.o $(basic_objs)
	g++ -shared -o libthreeB_jni.so $^ $(PLUGIN_LIBS)

three_B.jar: three_B.class  jar/plugins.config jar/multispot5.cfg LoadTestData.class ThreeBHelp.class ClassicGlow.class ThreeBLoader.class QuickPalmLoader.class
	jar cvfM three_B.jar -C jar/ .

%.class: %.java
	javac -classpath $(CLASSPATH):jar/ -d jar $<

ThreeBRunner.h: three_B.class
	javah -classpath jar ThreeBRunner


# make -nB | awk '{for(i=1;i<=NF; i++)if($(i)~/\.(cc)|(cpp)$/)print $(i)}' | xargs makedepend -f - 2> /dev/null | awk '!/usr/ && !/#/{for(i=2; i <= NF; i++)a[$1] = a[$1] " " $(i)}END{for(i in a)print i, a[i]}' >> Makefile.in
storm_imagery.o:  storm_imagery.h debug.h utility.h
multispot5.o:  conjugate_gradient_only.h forward_algorithm.h numerical_derivatives.h storm.h utility.h storm_imagery.h debug.h sampled_multispot.h drift.h spot_with_background.hh
utility.o:  utility.h debug.h
multispot5_headless.o:  storm_imagery.h multispot5.h utility.h mt19937.h
multispot5_place_methods.o:  multispot5.h utility.h mt19937.h randomc.h storm.h debug.h
multispot5_place_choice.o:  multispot5_place_methods.h multispot5.h utility.h multispot5_place_choice.h debug.h