[gmx-users] Installing GROMACS 4.6.7 on Intel Cluster

[Szilárd Páll]

The source tree is the directory structure that contains the GROMACS
source, i.e. /work/gb_lab/agosai/GROMACS/gromacs-4.6.5 in your case
which is identical with your installation directory. That's what is
causing the problem. You should install (i.e. set CMAKE_INSTALL_PREFIX
to) a different location.

Cheers,
--
Szilárd


On Mon, Nov 10, 2014 at 1:12 AM, Agnivo Gosai <agnivogromacs14 at gmail.com> wrote:
> Dr. Szilard :
>
> Yes , firstly I move inside the unzipped gromacs-4.6.5 folder then I create
> a build directory , then I run the cmake .. commands in the terminal. I
> follow the installation guide.
>
> As cmake 2.6.4 is installed in the root of the cluster and I need cmake 2.8
> , so I installed it in this directory :-
>
> /work/gb_lab/agosai/GROMACS/cmake-2.8.11/bin
>
> And this is the path to the gromacs-4.6.5 build directory :
>
> /work/gb_lab/agosai/GROMACS/gromacs-4.6.5/build
>
> This is my last installation command :
>
> /work/gb_lab/agosai/GROMACS/cmake-2.8.11/bin/cmake ..
> -DGMX_BUILD_OWN_FFTW=ON
> -DCMAKE_INSTALL_PREFIX=/work/gb_lab/agosai/GROMACS/gromacs-4.6.5
> -DCMAKE_C_COMPILER=icc -DCMAKE_CXX_COMPILER=icpc
>
> What do you mean by source tree ? I beg your pardon for my ignorance but I
> confess that I am a newcomer in the Linux world.
>
>
> --------- Forwarded message ----------
> From: "Szilárd Páll" <pall.szilard at gmail.com>
> To: Discussion list for GROMACS users <gmx-users at gromacs.org>
> Cc: Discussion list for GROMACS users <
> gromacs.org_gmx-users at maillist.sys.kth.se>
> Date: Mon, 10 Nov 2014 00:52:44 +0100
> Subject:
>
> There is something *very* weird happening here, it looks like cmake
> ends up in some kind of recursion and just before it crashes it is
> installing in a directory which contains '/gromacs' about 300 times.
>
> My first guess is that you are installing in the same directory where
> your build (and source tree?) is. Is that the case?
>
> --
> Szilárd
>
>
> On Mon, Nov 10, 2014 at 12:31 AM, Agnivo Gosai
> <agnivogromacs14 at gmail.com> wrote:
>> Dear Users
>>
>> Dr.Szilard : I searched in the web regarding the correct syntax and as you
>> wrote in the last mail , ran it again.
>>
>> The generated log file is huge. 260 MB. So I am sending a Google Drive
>> link. If possible kindly check and suggest further.
>>
> Thanks & Regards
> Agnivo Gosai
> Grad Student, Iowa State University.
> --
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