I think I fixed all this bison mess recently in cvs (I'd have
to check the logs). We really don't need to ship bison any more,
although it is a bit of a moving target as our build scripts
move some variables from global to local scope.

This problem is not unique to Fedora and it did happen to me on Ubuntu 8.04 as well. Here's how I solved it:

1. Using your package manager (apt, dpkg, synaptic, etc.) make sure that you install the "bison" package.

2. Run ./set_opts as usual.

3. Go to the sm2_4_30/src directory and edit Makefile.
At L87, make sure that:
YACC = /usr/bin/bison -y

At L101, change:
all_src : Bison, sm
for:
all_src : sm
(i.e. remove Bison) This will prevent the make script to try to compile Bison from the source code included with SM, which, for some reason, crashed at compilation.

4. Do the "make" as usual.

5. Do the "make install" as usual.

This should solve your problem. At least it did solve mine (I had the same error log as you).

Also, I've experienced problems with the swig part (required if you want to make the python module to access SM). Here's the end of the faulty "make" log:

"""""""""""""""""""""""""""""
make[1]: Entering directory `/home/breton/sm/sm2_4_30/swigInterfaces'
swig -python -I../src smLib.i
cc -Wall -Dlinux -DNEED_SWAP -c -g -I/home/breton/sm/sm2_4_30/src -I/usr/include/python2.5 -I/usr/lib/python2.5/site-packages/numpy/core/include smLib_wrap.c -fPIC
cc -Wall -Dlinux -DNEED_SWAP -o _smLib.so -shared smLib_wrap.o -L../src -lplotsub -ldevices -lutils -lX11 -lm -fPIC
/usr/bin/ld: ../src/libplotsub.a(dummies.o): relocation R_X86_64_32 against `a local symbol' can not be used when making a shared object; recompile with -fPIC
../src/libplotsub.a: could not read symbols: Bad value
collect2: ld returned 1 exit status
make[1]: *** [_smLib.so] Error 1
make[1]: Leaving directory `/home/breton/sm/sm2_4_30/swigInterfaces'
make: *** [swig] Error 2
"""""""""""""""""""""""""

Here's how I fixed it:

1. Run ./set_opts and at the question:
"""
You are on linux using the
cc -Wall -Dlinux -DNEED_SWAP
compiler; is this OK? [y|n]
"""

Answer no (i.e. type "n")
Then set_opts will prompt you with:

"""
type compiler command or q to exit
"""

You should type "cc -Wall -Dlinux -DNEED_SWAP -fPIC", i.e. you copy paste to proposed compiler line but you add "-fPIC".

2. You run "make" as usual.

3. You run "make install" as usual. Note that "make install" might fail to copy the python module
"""cp: cannot stat `swigInterfaces/{_smLib*,*.py}': No such file or directory
make: *** [install] Error 1
"""
In this case, simply copy the files manually:
cp sm2_4_30/swigInterfaces/_smLib* /usr/local/lib/
cp sm2_4_30/swigInterfaces/*.py /usr/local/lib/