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: [email protected] > > > > To: [email protected] > > > > 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 [email protected] > > > > 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 [email protected]. > > > > 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 [email protected] > > 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 [email protected]. > > 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: [email protected] Home: http://www.icp.uni-stuttgart.de/~icp/Florian_Dommert !! PGP-ENCODED emails preferred !!
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