Hi,
Do you have any previous versions of the intel compiler, and if so
does compilation complete with them?
Also, could you paste the last 20 or so lines leading up to the error?
A brief web search suggests this may be related to the '-lsvml' flag
during the link step (however the post refers to version 11.1 so no
guarantees,
http://software.intel.com/en-us/forums/showthread.php?t=77211).
Intel is notorious for messing with the linking step (see their MKL
stuff for more linking headaches) so I'm not surprised something may
have broken in the new version of the compilers.
Anyway, you could try manually editing your config.h file to remove
the '-lsvml' flag from the FLIBSF variable and see if compilation is
able to proceed.
-Dan
On Wed, Dec 1, 2010 at 6:34 AM, Vlad Cojocaru
<vlad.cojocaru.mpi-muenster.mpg.de> wrote:
> Dear Amber community,
>
> I am compiling AMBER 11 with the Intel compiler 12.0.0 (which I just
> purchased)
> The linking during the *SERIAL* compilation of Amber Tools 1.4 (patched
> with all bugfixes as of today) fails with error (see below, no other
> error in make.log):
>
> Has anybody experienced this with this version of the Intel compiler?
> I would appreciate any ideas on how to get rid of this problem
>
> Best
> Vlad
>
>
> Details:
> -------
> Architecture
> Linux name 2.6.18-194.26.1.el5 #1 SMP Tue Nov 9 12:54:20 EST 2010
> x86_64 x86_64 x86_64 GNU/Linux
> CPU:
> 2xAMD 6-core opterons per node
> OS:
> CentOS 5.5 (RHL 5.5)
> Compiler
> Intel 2011-0-084 (version 12)
> Config.h file attached
>
>
> make error:
> ---------------------------
> ld: pbsa: hidden symbol `__intel_cpu_indicator_init' in
> /usr/global/intel/composerxe-2011.0.084/compiler/lib/intel64/libirc.a(cpu_disp.o)
> is referenced by DSO
> ld: final link failed: Nonrepresentable section on output
> make[1]: *** [pbsa] Error 1
> make[1]: Leaving directory
> `/usr/global/amber/intel-2011.0.084-openmpi-1.5/amber11/AmberTools/src/pbsa'
> make: *** [serial] Error 2
> --------------------------------------
>
>
>
> --
> Dr. Vlad Cojocaru
> Max Planck Institute for Molecular Biomedicine
> Department of Cellular and Developmental Biology
> Roentgenstrasse 20
> 48149 Muenster, Germany
> tel: +49-251-70365-324
> fax: +49-251-70365-399
> email: vlad.cojocaru[at]mpi-muenster.mpg.de
>
>
>
> _______________________________________________
> AMBER mailing list
> AMBER.ambermd.org
> http://lists.ambermd.org/mailman/listinfo/amber
>
>
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Received on Wed Dec 01 2010 - 06:00:04 PST
