Hi, I would download the latest developer toolkit, install it and all should be correct to install an MPI - Version of GROMACS. Everything works fine and I realize no trouble with compilation.
Cheers, Flo On 22.07.10 18:58, KACHMAR Ali wrote: > Hi Florian, > > Thanks for your answer. You're right, I found I don't have lam in my > usr/local/. Where I should download this package? > > It is not coming on the developer. What I install, it is just this OpenMPI > > The latest OpenMPI source > from > http://www.open-mpi.org/software/ompi/v1.2/downloads/openmpi-1.2.8.tar.bz2 > > Could you please give the link for this OpenMPI/LAM. > > As you advised me I disable this command export > CPPFLAGS=-I/usr/local/openmpi/include, and I tried again, still the > same error. > > Thanks. > > Ali > ------------------------------------------------------------------------ > Date: Thu, 22 Jul 2010 12:51:53 +0200 > From: domm...@icp.uni-stuttgart.de > To: gmx-users@gromacs.org > Subject: Re: [gmx-users] installation: gromacs on Mac.10.5.8 leopard > > Hello Ali, > > starting with OS X 10.5 the Developer tools included also a nicely > working distribution of OpenMPI. So as soon as the Developer Tools > have been installed on the Mac following the steps on the GROMACS > website allowed to compile parallel binaries. Taking a look at your > bash_profile open several questions. Have you installed a self > compiled version of OpenMPI and LAM, because you define corresponding > environment variables ? It is also somehow uncommon that you find > binaries in a directory usually dedicated for libraries like > /usr/local/lib. > > On 22.07.10 11:00, KACHMAR Ali wrote: > > > > export PATH=$PATH:/usr/local/lib > > > export PATH=$PATH: /usr/bin/mpicc > > > export PATH=$PATH:/usr/local/lam/bin/ > > > > > In this three lines it seems you try to define the compilers, but take > a look at your environment variable PATH. Somewhere at the beginning > you should find the directory /usr/bin as set by the system wide > bash_profile. So the configure scripts usually chooses the compilers > contained in this directory. In your case it will be the gcc and mpicc > compilers and linkers supplied by the Developer tools. > > > > > > > export CPPFLAGS=-I/usr/local/openmpi/include > > > > > > Why do you involve now this header files, perhaps they do not suit to > the used version of OpenMPI ? > > Disable this lines in your .bash_profile open a new terminal and try > again, perhaps this solves the problem. Then we know that just the > path of the different installed MPI distributions were messed up. > > Cheers, > > Flo > > > > PS: the gcc is under the directory: /usr/local/lib or /usr/lib. > > > > > > > Thanks. > > > > > > Ali > > > > > > > > > > > > > From: ansgar.eszterm...@mpi-bpc.mpg.de > <mailto:ansgar.eszterm...@mpi-bpc.mpg.de> > > > > To: gmx-users@gromacs.org <mailto:gmx-users@gromacs.org> > > > > Date: Wed, 21 Jul 2010 12:15:25 +0200 > > > > Subject: Re: [gmx-users] installation: gromacs on Mac.10.5.8 > leopard > > > > > > > > > > > > On Jul 21, 2010, at 11:07 , KACHMAR Ali wrote: > > > > > > > > > checking whether the MPI cc command works... configure: > error: Cannot compile and link MPI code with mpicc > > > > > > > > > > > > This is the immediate problem: something goes wrong when > compiling a test program with mpicc. If you look into the > configure log, you should find a more detailed explanation of what > went wrong (somewhere near the end). > > > > > > > > Regards, > > > > > > > > A. > > > > -- > > > > Ansgar Esztermann > > > > DV-Systemadministration > > > > Max-Planck-Institut für biophysikalische Chemie, Abteilung 105 > > > > > > > > -- > > > > gmx-users mailing list gmx-users@gromacs.org > <mailto:gmx-users@gromacs.org> > > > > http://lists.gromacs.org/mailman/listinfo/gmx-users > > > > Please search the archive at http://www.gromacs.org/search > before posting! > > > > Please don't post (un)subscribe requests to the list. Use the > > > > www interface or send it to gmx-users-requ...@gromacs.org > <mailto:gmx-users-requ...@gromacs.org>. > > > > Can't post? Read http://www.gromacs.org/mailing_lists/users.php > > > > > > De nouvelles Emoticones sur Messenger ? Téléchargez > gratuitement les émoticônes Summer ! > > > > -- > > Ansgar Esztermann > > DV-Systemadministration > > Max-Planck-Institut für biophysikalische Chemie, Abteilung 105 > > > > -- > > gmx-users mailing list gmx-users@gromacs.org > <mailto:gmx-users@gromacs.org> > > http://lists.gromacs.org/mailman/listinfo/gmx-users > > Please search the archive at http://www.gromacs.org/search > before posting! > > Please don't post (un)subscribe requests to the list. Use the > > www interface or send it to gmx-users-requ...@gromacs.org > <mailto:gmx-users-requ...@gromacs.org>. > > Can't post? Read http://www.gromacs.org/mailing_lists/users.php > > > > > ------------------------------------------------------------------------ > Le nouveau Messenger arrive ! Téléchargez-le gratuitement et > découvrez ses nouvelles fonctionnalités > <http://clk.atdmt.com/FRM/go/244627952/direct/01/> > > > > -- > Florian Dommert > Dipl. Phys. > > Institute for Computational Physics > University Stuttgart > > Pfaffenwaldring 27 > 70565 Stuttgart > > Germany > > Tel: +49 - 711 / 6856-3613 > Fax: +49 - 711 / 6856-3658 > > EMail: domm...@icp.uni-stuttgart.de <mailto:domm...@icp.uni-stuttgart.de> > Home: http://www.icp.uni-stuttgart.de/~icp/Florian_Dommert > <http://www.icp.uni-stuttgart.de/%7Eicp/Florian_Dommert> > > !! PGP-ENCODED emails preferred !! > > ------------------------------------------------------------------------ > De nouvelles Emoticones sur Messenger ? Téléchargez gratuitement les > émoticônes Summer ! <http://clk.atdmt.com/FRM/go/240124507/direct/01/> -- Florian Dommert Dipl. Phys. Institute for Computational Physics University Stuttgart Pfaffenwaldring 27 70565 Stuttgart Germany Tel: +49 - 711 / 6856-3613 Fax: +49 - 711 / 6856-3658 EMail: domm...@icp.uni-stuttgart.de Home: http://www.icp.uni-stuttgart.de/~icp/Florian_Dommert !! PGP-ENCODED emails preferred !!
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