On Tue, 12 Jul 2005 14:51:08 -0700 (PDT), David Noriega <neruocomp@yahoo.com> wrote :
Well I did some more looking around and found that my problem was that I didnt have the 64bit package for libg2c. Its a bit weird with this system since it installs both i386 and x86_64 for some packages. Well that fixed this problem,
Good !
I have a new one. It seems I need to build the ATLAS libraries with -fPIC
/usr/bin/g77 -shared build/temp.linux-x86_64-2.4/build/src/Lib/optimize/lbfgsb-0.9/_lbfgsb module.o build/temp.linux-x86_64-2.4/build/src/fortranobject.o build/temp.linux-x86_64-2.4/Lib/optimize/lbfgsb-0.9/routines.o -L/usr/local/lib/atlas -Lbuild/temp.linux-x86_64-2.4 -llapack -lf77blas -lcblas -latlas -lg2c -o build/lib.linux-x86_64-2.4/scipy/optimize/_lbfgsb.so /usr/bin/ld: /usr/local/lib/atlas/liblapack.a(dpotrf.o): relocation R_X86_64_32 against `a local symbol' can not be used when making a shared object; recompile with -fPIC /usr/local/lib/atlas/liblapack.a: could not read symbols: Bad value
-fPIC again...
I'll keep you posted on my progress. I also wanted to point out something in scipy_distutils. The way cpuinfo.py is currently setup, it will not find that this system uses a Xeon processor. also it will fail to recongize it as having sse3. Looking at /proc/cpuinfo, Xeon is not in all caps and sse3, while it should be there, only comes up as ss. But that might just be a kernel thing as I fixed it in cpuinfo.py.
I've just managed to compile SciPy on a RedHat Advanced Server 3 on an IA-64, so I guess you're near to succeed too ! I've also tried to use the default atlas and lapack given by RedHat but it somehow didn't fit (couldn't remember the errors though). After having much trouble compiling both for Solaris and HP-UX, doing it on a Linux box was much more simpler (didn't say easy), so I recompile atlas and lapack and managed to compile SciPy. Numeric is really simple to compile, could you try to compile it with your atlas/lapack to see if you still got the error ? (you have to manually edit setup.py to indicate paths to atlas/lapack) That would prove that the problem is inside atlas/lapack. If that's the case I could help you compiling them. Keep us informed ! Regards,
--- David Noriega <neruocomp@yahoo.com> wrote:
Well thats easier said then done on a fedora/redhat system. I know enought to get rpmbuild to rebuild gcc for me, but how would I get it to recompile gcc with -fPIC. Any ideas as to which file I should edit and where to put "-fPIC"?
--- Nicolas Pernetty <nicopernetty@yahoo.fr> wrote:
On Tue, 12 Jul 2005 08:07:10 -0700 (PDT), David Noriega <neruocomp@yahoo.com> wrote :
Hello, I've been put in charge of setting up a Dell 64bit Xeon workstation and on the side I've been tring to get scipy to install, but I haven't had any luck. I compiled LAPACK, BLAS, and ATLAS sucsesfuly and scipy finds them. Its when I try to build scipy that I get problems. I try just plain "./setup.py build" and I get these errors:
Hello,
/usr/bin/ld:
/usr/lib/gcc-lib/x86_64-redhat-linux/3.2.3/libg2c.a(s_stop.o):
relocation R_X86_64_32 against `a local symbol' can not be used when making a shared object; recompile with -fPIC
It seems that your gcc installation is somewhat messed up (libg2c hasn't been compiled with -fPIC) IMHO, best you can do to see if it's the problem is to compile your own gcc (try 3.4.3 instead of 4.0.0 which seems a little buggy). Don't be afraid : it's not that hard.
Regards,
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