macOS Anyone Know About make Files?

[astrostu]

I'm supposed to compile this code to do some Earth mantle convection simulations, and I'm supposed to use an included makefile to do it. However, it doesn't work on my computer, and I'm completely out of my vague ideas on how to edit it to try to get it to work.

I'm including it below (it's a tad long), and if anyone has any ideas, I'd really appreciate it!!

#
#  Makefile for "citcom" allowing considerable variations
#

#
#  NOTES:
#  1) Macro substitution is different for different version of make, for SGI, CRAY, HP
#  It seems necessary to go through and replace the CEXT ... FOBJFLAG macros manually.
#
#  2) Put FLAGS=$(YOUR_MACHINE_FLAGS) chosen from the list that follows, add machines
#  where necessary, try and find a better way than just defining "const" to be null. 
#
#  3) Which flags give best performance ?  I'm doing my best with the architectures	
#  as I try them.

##############################################################################
#	Individual Machine Variations
##############################################################################

#FFTLIB= /home/arthur/d5/zhong/lib/fft.a /home/arthur/d5/zhong/lib/realfft.a
COMPRESS= /usr/bin/compress
LIB_PATH=
LIB_LIST=
LIB= $(LIB_PATH) $(LIB_LIST) -lm


###################################################################
#	Operating System Variables
###################################################################

CC=cc #/usr/lib/cmplrs/cc/gemc_cc
F77=f77
CPP=

CEXT=c
FEXT=F   # which implies further action of cpp
OBJEXT=o
FOBJEXT=o
OBJFLAG=-c
FOBJFLAG=-c


###################################
# Choose your machine from here.
###################################

####################################
# Dec Alpha, OSF 1
#AXPFLAGS= -unsigned  -non_shared  \
#	-math_library=fast -prefix=all -reentrancy=none -assume=noaccuracy_sensitive \
#	-unsigned_char -extern=strict_refdef -trapuv #  -D_INTRINSICS 
#AXPLDFLAGS= -unsigned -assume=noaccuracy_sensitive -non_shared -D_INTRINSICS 
#AXPOPTIM= -O -Ublas -float -Olimit 1000 # -cord  -feedback citcom.feedback
####################################

####################################
# CRAY Unicos systems
#CRAYFLAGS=
#CRAYLDFLAGS=
#CRAYOPTIM=
####################################

####################################
#IBM AIX systems
#AIXFLAGS= -D__aix__
#AIXLDFLAGS=
#AIXOPTIM= -O3 -qarch=pwr -qopt=pwr -Ublas
####################################

####################################
# SUNOS systems
#SUNFLAGS= -D__sunos__ -Dconst=""
#SUNLDFLAGS=
#SUNOPTIM=-O3 -fsingle
####################################

####################################
# Solaris systems
#SOLARISFLAGS= -D__solaris -Dconst="" -I/opt/mpi/include
#SOLARISLDFLAGS=-fast -lsocket -lnsl -lthread
#SOLARISOPTIM=-fast -xO4 -dalign -xtarget=ultra -xarch=v8plus -fsingle
####################################

####################################
#HP running HPUX
#HPUXFLAGS=-Dconst=""
#HPUXLDFLAGS=
#HPUXOPTIM=+O3
####################################

####################################
# SGI with IRIX 
#SGIFLAGS=
#SGILDFLAGS=
#SGIOPTIM=-O -fsingle
####################################

####################################
#PARAGON 
#PARAGONFLAGS=-nx
#PARAGONLDFLAGS=
#PARAGONOPTIM=-O4
####################################

####################################
#Linux
LinuxFLAGS=-I/usr/local/mpi/include
LinuxLDFLAGS=
LinuxOPTIM=-O3
####################################

FLAGS= $(LinuxFLAGS) -DCOMPRESS_BINARY=\"$(COMPRESS)\"
LDFLAGS= $(LinuxLDFLAGS)
#OPTIM= $(LinuxOPTIM)
#FLAGS= $(SOLARISFLAGS) -DCOMPRESS_BINARY=\"$(COMPRESS)\"
#LDFLAGS= $(SOLARISLDFLAGS)
#OPTIM= $(SOLARISOPTIM)
#FLAGS= $(HPUXFLAGS) -DCOMPRESS_BINARY=\"$(COMPRESS)\"
#LDFLAGS= $(HPUXLDFLAGS)
#OPTIM= $(HPUXOPTIM)

####################################################################
#	Citcom's files .....
####################################################################

CFILES= Advection_diffusion.c\
	Boundary_conditions.c\
	Citcom.c\
	Construct_arrays.c\
	Convection.c\
	Drive_solvers.c\
	Element_calculations.c\
	Geometry_cartesian.c\
	General_matrix_functions.c\
	Stokes_flow_Incomp.c\
	Instructions.c\
	Nodal_mesh.c\
	Output.c\
	Pan_problem_misc_functions.c\
	Parsing.c\
	Phase_change.c\
	Process_buoyancy.c\
	Process_velocity.c\
	Profiling.c\
	Shape_functions.c\
	Size_does_matter.c\
	Solver_multigrid.c\
	Solver_conj_grad.c\
	Topo_gravity.c\
	Viscosity_structures.c

HEADER = element_definitions.h\
	 global_defs.h\
	 viscosity_descriptions.h\
	 advection.h


FFILES=#Blas_lapack_interfaces.F

# Note, if make on your machine does not support nesting of
# Macro definitions (CRAY), you'll have to do the substitution yourself
# at this point...

OBJFILES=$(CFILES:.c=.o) $(FFILES:.f=.o)
#
global_defs.h: viscosity_descriptions.h advection.h\
		Convection_variables.h
		
# The following entries can probably be automated from $CFILES etc

Advection_diffusion.o: $(HEADER) Advection_diffusion.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Advection_diffusion.c
#
Boundary_conditions.o: $(HEADER) Boundary_conditions.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Boundary_conditions.c
#	
Citcom.o: $(HEADER) Citcom.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Citcom.c
#	
Construct_arrays.o: $(HEADER) Construct_arrays.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Construct_arrays.c
#	
Convection.o: $(HEADER) Convection.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Convection.c
#	
Drive_solvers.o: $(HEADER) Drive_solvers.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Drive_solvers.c
#	
Element_calculations.o: $(HEADER) Element_calculations.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Element_calculations.c
	
General_matrix_functions.o: $(HEADER) General_matrix_functions.c
	$(CC) $(OPTIM) $(FLAGS) $(OBJFLAG)   General_matrix_functions.c
		
Geometry_cartesian.o: $(HEADER) Geometry_cartesian.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Geometry_cartesian.c
	
Instructions.o: $(HEADER) Instructions.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Instructions.c
	
Nodal_mesh.o: $(HEADER) Nodal_mesh.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Nodal_mesh.c

Output.o: $(HEADER) Output.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Output.c
	
Pan_problem_misc_functions.o: $(HEADER)  Pan_problem_misc_functions.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Pan_problem_misc_functions.c
		
Parsing.o: $(HEADER) Parsing.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Parsing.c

Phase_change.o: $(HEADER) Phase_change.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Phase_change.c

Process_velocity.o: $(HEADER) Process_velocity.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Process_velocity.c

Process_buoyancy.o: $(HEADER) Process_buoyancy.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Process_buoyancy.c
			
Profiling.o: $(HEADER) Profiling.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Profiling.c
	
Shape_functions.o: $(HEADER) Shape_functions.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Shape_functions.c
	
Size_does_matter.o: $(HEADER) Size_does_matter.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Size_does_matter.c
	
Solver_conj_grad.o: $(HEADER) Solver_conj_grad.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Solver_conj_grad.c
	
Solver_multigrid.o: $(HEADER) Solver_multigrid.c
	$(CC) $(OPTIM) $(FLAGS) $(OBJFLAG)   Solver_multigrid.c

Stokes_flow_Incomp.o: $(HEADER) Stokes_flow_Incomp.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Stokes_flow_Incomp.c
	
Topo_gravity.o: $(HEADER) Topo_gravity.c 
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Topo_gravity.c
	
Viscosity_structures.o: $(HEADER) Viscosity_structures.c
	$(CC) $(OPTIM) $(FLAGS)  $(OBJFLAG)  Viscosity_structures.c
	

Blas_lapack_interfaces.f: Blas_lapack_interfaces.F
	$(CPP) $(OPTIM) -P Blas_lapack_interfaces.F Blas_lapack_interfaces.f
	$(F77) $(OPTIM) $(FOPTIM) -c Blas_lapack_interfaces.f
	

smaller: 
	compress $(CFILES)

larger:
	uncompress $(CFILES)


citcom.x: $(OBJFILES)  $(HEADER) Makefile
	$(CC) $(OPTIM) $(FLAGS) $(LDFLAGS)  -o citcom.x $(OBJFILES)  $(FFTLIB)  $(LIB)


# Profiling/testing versions 

citcom2: $(OBJFILES)  $(HEADER) Makefile
	$(CC) -p $(OPTIM) $(LDFLAGS)  -o citcom2  $(OBJFILES)  $(FFTLIB)  $(LIB)
	

citcom2.pixie: citcom2 # $(OBJFILES)  $(HEADER) Makefile
	pixie -nopids -o citcom2.pixie citcom2

pixie: citcom2.pixie
	echo "Pixie profiling code for DEC alpha in citcom2.pixie"

The errors that I get are lots of "bad magic number (not a Mach-O file)". And then at the end, "collect2: ld returned 1 exit status".

 

[robbieduncan]

There does not appear to be an issue with the make file. It is trying to compile the code and reporting the errors to you. This is what is supposed to happen.

The not a Mach-O file error tells you that you have compiled something into an executable format that is not Mac OSX native. I would surmise that this is because you are using the Linux flags and options. OSX is not anything like Linux when you get to this level. The root problem might be that you are compressing the binary files before linking them. Perhaps the OSX linker does not support this?

 

[astrostu]

Alright, I've figured it out. First I got rid of all the flags. That was one issue (I had solved most of that before I posted here).

The second was that I got rid of all the *.o files that were in the directory when I downloaded the code. I'm guessing that since they were there, the compiler didn't think it needed to re-make them even though they were compiled on a different OS and so wouldn't work on the Mac?

Anyway, it's working now, and a friend in the class had the same problem on her PC and after doing those two things (removing all the flags from the make file and removing all the *.o files) it worked for her, too.

 

[ChrisA]

This is a rather primitive Makefile. Looks like that way things where done 10 or 15 years ago back before "everyone" started using GNU Autotools. Actually in 1990 this would have been a first calss setup. Well commented and neatly typed.

I notice yo have un-commented the section labled "Linux". Seems an odd choise. But it looks lke "Mac OS X" is not an option and likey this software has not been built on a Mac yet. You will have to "port" it or ind someone to do it for you. It is likely not hard to do. If it can be built on this many different syustem is is likely well written and portable code. Adding Mac OS to the list will not be really hard but it does require someown with programing skils