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 <[email protected]> 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" <[email protected]> > To: Discussion list for GROMACS users <[email protected]> > Cc: Discussion list for GROMACS users < > [email protected]> > 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 > <[email protected]> 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. > -- > Gromacs Users mailing list > > * Please search the archive at > http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before posting! > > * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists > > * For (un)subscribe requests visit > https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or send a > mail to [email protected]. -- Gromacs Users mailing list * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before posting! * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists * For (un)subscribe requests visit https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or send a mail to [email protected].
