# this is my original makefile.
# you will of course have to addapt it to all your system settings etc.
# it will definitely not work "as is"
# but at least it could serve as a starting guideline...


CC = g++
#DEBUG = -g #-Ddebug
#replace with the following when finished (optimisation for speed)
DEBUG = -O3 #use -O1 to -O3
CCFLAGS = -Wall $(DEBUG) # -fhandle-exceptions

#DIRECTORIES
CDIR      = /home/rsierra/sw_dev/c++/boston
TENSORDIR = $(CDIR)
LAPACKDIR = $(CDIR)/CLAPACK
VTKDIR    = /usr/pack/vtk-3.2-mo
#VTKDIR    = /projects/shortterm/warfield/vtk-g++
KRIGDIR   = $(CDIR)/kriging

#CLAPACK STUFF
CLFLAGS   = -L$(LAPACKDIR) -L$(LAPACKDIR)/F2CLIBS -llapack -lF77 -lI77 -lblas
CINCDIRS  = -I$(LAPACKDIR)
CLAPACK   = $(CLFLAGS) $(CINCDIRS) 

#XERCESC STUFF
# make shure to have environment set:
# setenv PATH ${PATH}:/home/rsierra/c++/xml/xerces-c-src1_3_0/bin
# setenv LD_LIBRARY_PATH ${XERCESCROOT}/lib:$LD_LIBRARY_PATH
# setenv LD_LIBRARY_PATH  /local/lib:$LD_LIBRARY_PATH

#XERCESCROOT =/usr/pack/xerces-c-4.0-mo/mips-sgi-irix6.5
XERCESCROOT =/usr/pack/xerces-c-4.0-mo/sun4m-sun-solaris2.6
XLFLAGS   = -L$(XERCESCROOT)/lib -lxerces-c1_4 -L/usr/lib32 -lpthread -lc #-L/usr/local/lib -lc
#XLFLAGS   = -L$(XERCESCROOT)/lib -rpath $(XERCESCROOT)/lib -lxerces-c1_4 -L/usr/lib32 -lpthread -lc #-L/usr/local/lib -lc
XINCDIRS  = -I$(XERCESCROOT) -I$(XERCESCROOT)/xerces-c-src1_4_0/src/
XERCESC   = $(XLFLAGS) $(XINCDIRS) -DSOLARIS -fpic -w -O
XOBJS     = DOMTreeErrorReporter.o

#VTK STUFF
OS        = solaris
VLFLAGS   = -L$(VTKDIR)/$(OS)/lib 
VLIBS     = -lVTKContribTcl -lVTKContrib -lVTKPatentedTcl -lVTKPatented -lVTKImagingTcl -lVTKImaging -lVTKGraphicsTcl -lVTKGraphics -lVTKCommonTcl -lVTKCommon -lstdc++ -ldl -lXext -lXt -lX11 -lGL -lm 
TCLFLAGS  = -I/usr/pack/tcltk-8.3.2.solaris-mo/include/ -L/usr/pack/tcltk-8.3.2.solaris-mo/lib -ltcl8.3 -ltk8.3
VINCDIRS  = -I$(VTKDIR)/$(OS)/src/vtk3.2/common -I$(VTKDIR)/$(OS)/src/vtk3.2/graphics
VTK       = $(VLFLAGS) $(VLIBS) $(VINCDIRS) $(TCLFLAGS)

#KRIGING STUFF
# make shure to have environment set:
# setenv LD_LIBRARY_PATH ${LD_LIBRARY_PATH}:/home/rsierra/c++/tensor/kriging/lib/SunOS-5.7

KCSRCS    = kriging/correlationmatrix.c kriging/variogram.c
#KCSRCS    = kriging/correlationmatrix.c variogram.cc
# For the automatic dependency generation
KOBJS     = $(KCSRCS:.c=.o)
#KLIBS     = -L$(KRIGDIR) -lkdt -ltcl8.2 $(CLAPACK) -lm 
KLIBS     = -L$(KRIGDIR) -lkdt $(CLAPACK) -lm 
ARCH      = sun4-solaris 
#ARCH      = SunOS-5.7  #both seem to work
KINCDIRS  = -I$(KRIGDIR) -I$(KRIGDIR)/kdt -I$(KRIGDIR)/io

#OBJECTS 
OBJS      = stdimage.o andi.o rsfunctions.o tensor.o eigen.o $(XOBJS) basefield.o tensorfield.o eigenfield.o display.o background.o kfunctions.o tensorfunctions.o
#applyField.o

#INCLUDE DIRECTORIES
INCDIRS   = $(CINCDIRS) $(VINCDIRS) $(XINCDIRS) $(KINCDIRS)

#TEST PROGRAMS

simple: 
	$(CC) $(CCFLAGS) -o simple simple.cc $(OBJS) $(CLAPACK) $(VTK)

test: $(OBJS) test.cc
	$(CC) $(CCFLAGS) -o test test.cc     $(OBJS) $(CLAPACK) $(VTK) $(XERCESC) $(FILEOPS)

read: $(XOBJS) read.cc
	$(CC) $(CCFLAGS) -o read read.cc     $(XOBJS) $(XERCESC)

write: $(XOBJS) write.cc
	$(CC) $(CCFLAGS) -o write write.cc   $(XOBJS) $(XERCESC)

empty:  empty.cc
	$(CC) $(CCFLAGS) -o empty empty.cc   $(XERCESC)

match: $(OBJS) match.cc
	$(CC) $(CCFLAGS) -o match match.cc $(OBJS) $(CLAPACK) $(VTK) $(XERCESC) $(INCDIRS) $(KOBJS) $(KLIBS) kriging/io/fileops.o -L./kriging/io/$(ARCH) -lz

displacement: $(OBJS) displacement.cc
	$(CC) $(CCFLAGS) -o displacement displacement.cc $(OBJS) $(CLAPACK) $(VTK) $(XERCESC) $(INCDIRS) $(KOBJS) $(KLIBS) kriging/io/fileops.o -L./kriging/io/$(ARCH) -lz

vtktensor: 
	$(CC) $(CCFLAGS) -o vtktensor vtkTensor.cc $(VTK)
vtktest: 
	$(CC) $(CCFLAGS) -o vtktest vtktest.cc $(VTK)
sphere: 
	$(CC) $(CCFLAGS) -o sphere sphere.cc $(VTK)

difference: difference.cc
	$(CC) $(CCFLAGS) -o difference difference.cc $(INCDIRS) $(KOBJS) $(KLIBS) kriging/io/fileops.o -L./kriging/io/$(ARCH) -lz
pic2mri: pic2mri.cc
	$(CC) $(CCFLAGS) -o pic2mri pic2mri.cc $(INCDIRS) $(KOBJS) $(KLIBS) kriging/io/fileops.o -L./kriging/io/$(ARCH) -lz
pointmatcher: pointmatcher.cc
	$(CC) $(CCFLAGS) -o pointmatcher pointmatcher.cc $(INCDIRS) rsfunctions.o $(KOBJS) $(KLIBS) kriging/io/fileops.o -L./kriging/io/$(ARCH) -lz

FILEOPS   = $(INCDIRS) $(KOBJS) $(KLIBS) kriging/io/fileops.o -L./kriging/io/$(ARCH) -lz

#REAL PROGRAMS
#RESAMPOBJS = -IresampleSimon resampleSimon/resample.o resampleSimon/volfileops.o resampleSimon/xmlVolumeHeader.o resampleSimon/workpile.o resampleSimon/thread_compat.o resampleSimon/UtilsInC.o resampleSimon/similarity.o resampleSimon/transform.o
synthetic: $(OBJS) synthetic.cc
	$(CC) $(CCFLAGS) -o synthetic synthetic.cc $(OBJS) $(CLAPACK) $(VTK) $(XERCESC) $(FILEOPS)

generatePoints: $(OBJS) generatePoints.cc
	$(CC) $(CCFLAGS) -o generatePoints generatePoints.cc $(OBJS) $(CLAPACK) $(VTK) $(XERCESC) $(FILEOPS)

rigidreg: $(OBJS) rigidreg.cc
	$(CC) $(CCFLAGS) -o rigidreg rigidreg.cc $(OBJS) $(CLAPACK) $(VTK) $(XERCESC) $(FILEOPS)

nonrigidreg: $(OBJS) nonrigidreg.cc
	$(CC) $(CCFLAGS) -o nonrigidreg nonrigidreg.cc $(OBJS) $(CLAPACK) $(VTK) $(XERCESC) $(FILEOPS)

mask: $(OBJS) mask.cc
	$(CC) $(CCFLAGS) -o mask mask.cc $(OBJS) $(CLAPACK) $(VTK) $(XERCESC) $(FILEOPS)

main: $(OBJS) main.cc
	$(CC) $(CCFLAGS) -o main main.cc $(OBJS) $(CLAPACK) $(VTK) $(XERCESC) $(FILEOPS)

process: $(OBJS) process.cc
	$(CC) $(CCFLAGS) -o process process.cc $(OBJS) $(CLAPACK) $(VTK) $(XERCESC) $(FILEOPS)

convert: $(OBJS) convert.cc
	$(CC) $(CCFLAGS) -o convert convert.cc $(OBJS) $(CLAPACK) $(VTK) $(XERCESC) $(FILEOPS)

#OBJECT FILES

tensorfunctions.o: tensorfunctions.h tensorfunctions.cc
	$(CC) $(CCFLAGS) -c tensorfunctions.cc  $(INCDIRS)

applyField.o: applyField.h applyField.cc
	$(CC) $(CCFLAGS) -c applyField.cc  $(INCDIRS) 

kfunctions.o: kfunctions.h kfunctions.cc
	$(CC) $(CCFLAGS) -c kfunctions.cc  $(INCDIRS)

resample.o: resample.h resample.cc
	$(CC) $(CCFLAGS) -c resample.cc

rsfunctions.o: rsfunctions.h rsfunctions.cc
	$(CC) $(CCFLAGS) -c rsfunctions.cc $(INCDIRS)

doubletensor.o: doubletensor.h doubletensor.cc
	$(CC) $(CCFLAGS) -c doubletensor.cc      $(CINCDIRS)
tensor.o: tensor.h tensor.cc
	$(CC) $(CCFLAGS) -c tensor.cc      $(CINCDIRS)
tensorfield.o: tensorfield.h tensorfield.cc
	$(CC) $(CCFLAGS) -c tensorfield.cc $(INCDIRS)

eigen.o: eigen.h eigen.cc
	$(CC) $(CCFLAGS) -c eigen.cc       $(CINCDIRS)
eigenfield.o: eigenfield.h eigenfield.cc
	$(CC) $(CCFLAGS) -c eigenfield.cc  $(INCDIRS)

background.o: background.h background.cc
	$(CC) $(CCFLAGS) -c background.cc  $(INCDIRS)

basefield.o: basefield.h basefield.cc
	$(CC) $(CCFLAGS) -c basefield.cc   $(XERCESC) $(INCDIRS)

display.o: display.h display.cc
	$(CC) $(CCFLAGS) -c display.cc     $(INCDIRS)

DOMTreeErrorReporter.o: DOMTreeErrorReporter.cpp
	$(CC) $(CCFLAGS) -c  DOMTreeErrorReporter.cpp $(XERCESC)
#$(XINCDIRS)

andi.o: andi.cc
	$(CC) $(CCFLAGS) -c andi.cc

stdimage.o: stdimage.cc
	$(CC) $(CCFLAGS) -c stdimage.cc

#variogram.o: variogram.h variogram.cc
#	$(CC) $(CCFLAGS) -c variogram.cc
variogram.o:
	gcc -c variogram.c
	cp variogram.o kriging/variogram.o
	cp variogram.c kriging/variogram.c
	cp variogram.h kriging/variogram.h

#CLEAN UP

clean: 
	rm *.o *~
cleanall:
	rm *.o *.~ read simple test main test2 convert sphere vtktest vtktensor