[foamy]

Only having a limited knowledge of compiling UNIX apps, I have immediately run into problems compiling an app that I need. The authors say that it compiles on linux, IRIX, Solaris, AIX, Cygwin, etc so I thought it would be trivial to compile it for OSX, but alas I was wrong.

The app is located
here

Here's the makefile

Code:
CC = gcc
CFLAGS = -O3 -Wall -Wno-char-subscripts -DLinux
.SUFFIXES : .dg .dh .dgd .dhd .DG .DH .DGD .DHD

.dg.DG :
	machine.pl 999999 $<
.dh.DH :
	machine.pl 0 $<
.dgd.DGD :
	machine.pl 999999 $<
.dhd.DHD :
	machine.pl 0 $<

all : progs utils data-rna data-dna

progs : Bin/hybrid-ss-min Bin/hybrid-min

utils : Bin/ct-energy

Bin/energy.o : Src/energy.c Src/energy.h Src/os.h
	$(CC) $(CFLAGS) -c Src/energy.c -o Bin/energy.o

Bin/hybrid-ss-min.o : Src/hybrid-ss-min.c Src/energy.h Src/getopt.h Src/os.h Src/util.h Src/version.h Src/options.h
	$(CC) $(CFLAGS) -c Src/hybrid-ss-min.c -o Bin/hybrid-ss-min.o

Bin/hybrid-ss-min : Bin/energy.o Bin/hybrid-ss-min.o
	$(CC) $(CFLAGS) Bin/energy.o Bin/hybrid-ss-min.o -lm -o Bin/hybrid-ss-min -liberty
	strip Bin/hybrid-ss-min

Bin/hybrid-min.o : Src/hybrid-min.c Src/energy.h Src/getopt.h Src/os.h Src/util.h Src/version.h Src/options.h
	$(CC) $(CFLAGS) -c Src/hybrid-min.c -o Bin/hybrid-min.o

Bin/hybrid-min : Bin/energy.o Bin/hybrid-min.o
	$(CC) $(CFLAGS) Bin/energy.o Bin/hybrid-min.o -lm -o Bin/hybrid-min -liberty
	strip Bin/hybrid-min

Bin/ct-energy.o : Src/ct-energy.c Src/energy.h Src/getopt.h Src/os.h Src/util.h Src/version.h
	$(CC) $(CFLAGS) -c Src/ct-energy.c -o Bin/ct-energy.o

Bin/ct-energy : Bin/energy.o Bin/ct-energy.o
	$(CC) $(CFLAGS) Bin/energy.o Bin/ct-energy.o -o Bin/ct-energy -lm -liberty
	strip Bin/ct-energy

data-rna : Dat/asint1x2.DG Dat/asint1x2.DH Dat/dangle.DG  (TRUNCATED TO MAKE READABLE)

data-dna : Dat/asint1x2.DGD Dat/asint1x2.DHD (TRUNCATED TO MAKE READABLE)

clean :
	-rm Bin/*.o Bin/hybrid-ss-min Bin/ct-energy

running make gives me this

Code:
gcc -O3 -Wall -Wno-char-subscripts -DDarwin Bin/energy.o Bin/hybrid-ss-min.o -lm -o Bin/hybrid-ss-min -liberty
ld: can't locate file for: -liberty
make: *** [Bin/hybrid-ss-min] Error 1

I have no idea what -liberty is and commenting it out gives

Code:
gcc -O3 -Wall -Wno-char-subscripts -DDarwin Bin/energy.o Bin/hybrid-ss-min.o -lm -o Bin/hybrid-ss-min 
ld: Undefined symbols:
_getopt_long
make: *** [Bin/hybrid-ss-min] Error 1

So at this point I have completely exhausted my knowledge of compiling Unix apps.

Any help/suggestions would be greatly appreciated. Thanks in advance for any help you can provide.

[P]

You're missing some code library called liberty.a or something like that. Check the ReadMe about what libs you should have installed before compiling. Also make sure that the libs in question are in the directories searched by make.

[johnMG]

'-liberty' is telling the linker that you want libiberty.dylib or libiberty.a linked into your executable.

Could be a typo. Maybe it's supposed to be -lliberty (note the extra lowercase 'L' at the beginning).

Though, I looked in my /usr/lib and didn't see a libliberty.dylib or libliberty.a anywhere (and anyway, they don't sound familiar either).

Hmm... evidently, this library contains some exported symbol named _getopt_long which looks to me like some very basic function for getting "--longoptions" from the command line.

Isn't that part of some very basic GNU library?

Does this project have a mailing list? Try there, or maybe on the project's web site message board (if there is one). Otherwise, maybe email the author? Let us know how it goes.