[gmx-users] Incomplete compiling Gromacs 5.1

[Justin Lemkul]

On 10/29/15 12:16 AM, Chunlei ZHANG wrote:
> Dear All,
> I was trying to compiling Gromscs 5.1 on a cluster with with two 10-core
> Intel Xeon E5-2600 v3(Haswell)  on each node.
> The command with cmake:
> cmake .. -DCMAKE_C_COMPILER=mpiicc \
> -DCMAKE_CXX_COMPILER=mpiicpc \
> -DGMX_MPI=on -DGMX_OPENMP=on \
> -DGMX_GPU=off \
> -DGMX_SIMD=AVX2_256 \
> -DGMX_DOUBLE=off \
> -DCMAKE_INSTALL_PREFIX=/my/path/GMX5.1 \
> -DBUILD_SHARED_LIBS=off \
> -DGMX_FFT_LIBRARY=MKL
>
> Then, I execute make, but received the following message:
> "make[2]: warning:  Clock skew detected.  Your build may be incomplete."
>
> Then, make install:
> In the bin folder, I only found these executables:
> demux.pl  gmx-completion.bash  gmx-completion-gmx_mpi.bash  gmx_mpi  GMXRC
>   GMXRC.bash  GMXRC.csh  GMXRC.zsh  xplor2gmx.pl
>
> Could anyone suggest possible solution to this?

Solution to what?  There is only one binary in version 5.1, called "gmx" (or 
"gmx_mpi" in the case of an MPI build).

-Justin

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

Justin A. Lemkul, Ph.D.
Ruth L. Kirschstein NRSA Postdoctoral Fellow

Department of Pharmaceutical Sciences
School of Pharmacy
Health Sciences Facility II, Room 629
University of Maryland, Baltimore
20 Penn St.
Baltimore, MD 21201

jalemkul at outerbanks.umaryland.edu | (410) 706-7441
http://mackerell.umaryland.edu/~jalemkul

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