[gmx-users] gromacs 4.6.3 and Intel compiiler 11.x

[Justin Lemkul]

On 9/3/13 1:47 PM, Guanglei Cui wrote:
> Dear GMX users,
>
> I'm attempting to compile gromacs 4.6.3 with an older Intel compiler (ver
> 11.x). Here is how I compiled FFTW,
>
> ./configure CC=icc F77=ifort CFLAGS="-O3 -gcc"
> --prefix=/tmp/gromacs-4.6.3/fftw-3.3.3/build-intel-threads --enable-threads
> --enable-sse2 --with-combined-threads --with-our-malloc16 --enable-float
>
> And, here is how I invoked cmake,
>
> CC=icc CXX=icpc ../cmake-2.8.11/bin/cmake .. -DGMX_FFT_LIBRARY=fftw3
> -DFFTWF_LIBRARY=/tmp/gromacs-4.6.3/fftw-3.3.3/build-intel-threads/lib/libfftw3f.a
> -DFFTWF_INCLUDE_DIR=/tmp/gromacs-4.6.3/fftw-3.3.3/build-intel-threads/include
> -DBUILD_SHARED_LIBS=no
> -DCMAKE_INSTALL_PREFIX=/home/gc603449/APPLICATIONS/gromac-4.6.3/thread-float-static
> -DREGRESSIONTEST_PATH=/tmp/gromacs-4.6.3/regressiontests-4.6.1
>
> When I ran 'make check', 39 out of 142 kernel tests failed, and 2 out of 9
> free energy tests failed.
>
> This is my first time to compile gromacs, which I am not very familiar
> with. I wonder if anyone can kindly point out what has gone wrong, and
> where to look for hints. Any help is much appreciated.
>
> Best regards,
> --
> Guanglei Cui
> PS: I am aware of a warning about using older Intel compilers with 4.6.3,
> but that's the only quality compiler I got. The gcc compiler I have access
> to is too old (ver 4.1.x)

I assume what you're referring to is http://redmine.gromacs.org/issues/1126, so 
it should be pretty clear (and cmake reminds you) that there are expected 
regression test failures with this compiler and SSE4.1.  I suppose a workaround 
is to use a different CPU acceleration, but you'll pay a price in performance. 
Outdated compilers can't be expected to handle all the best features Gromacs has 
to offer :)

-Justin

-- 
==================================================

Justin A. Lemkul, Ph.D.
Postdoctoral Fellow

Department of Pharmaceutical Sciences
School of Pharmacy
Health Sciences Facility II, Room 601
University of Maryland, Baltimore
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Baltimore, MD 21201

jalemkul at outerbanks.umaryland.edu | (410) 706-7441

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