Re: [AMBER] Amber 11 and AmberTools 1.5 on Debian 6

From: Jiri Wiesner <>
Date: Sun, 12 Jun 2011 16:59:46 +0200

Dear Siavoush,
Debian 6 is a very good choice, but what is more important is the compiler. You might use the GNU gcc compiler suite which works well, but the intel compilers are the best for this kind of job. The version 11.1.072 works for me. Interestingly, version 11.1.073 fails with such a nice error during linking:

/usr/local/intel/Compiler/11.1/073/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
`/sl4/wiesner/compiling/amber11/AmberTools/src/pbsa' make: *** [serial]
Error 2

So, if you get to see something like this, do not lose hope and try a
different compiler version ;-).
Jiri Wiesner

On 12/06/11 13:10, Siavoush Dastmalchi wrote:
> Dear List,
> I want to install Amber 11 and AmberTools 1.5 on a Linux cluster. Currently OS is Fedora 5 which is too old and I am thinking to upgrade my system. I was wondering if anyone can let me know if it is a good choice to upgrading the OS of my cluster to Debian 6. Has anyone got any experience with installation of Amber11 on Debian-based cluster?
> Cheers,
> Siavoush
> _______________________________________________
> AMBER mailing list

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Received on Sun Jun 12 2011 - 08:30:02 PDT
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