Re: [R] Install Rmpi on Fedora with mpich2 installed.

From: vittorio <vdemart1_at_tin.it>
Date: Fri 23 Dec 2005 - 00:40:35 EST

I don't know Fedora but you should have installed the dev(-elopment) packages too (like mpich-dev or similar for instance). Usually under unixes those supplementary packages contain all the header files such as mpi.h needed to compile a C program.

Vittorio

Alle 20:45, martedě 20 dicembre 2005, Ye, Bin ha scritto:
> Thank you very much, Martin! I've tried that already, but it still can't
> find the mpi.h file.
>
> Any other suggestions?
>
>
>
> Bin
>
>
> -----Original Message-----
> From: Martin Morgan [mailto:mtmorgan@fhcrc.org]
> Sent: Tue 12/20/2005 2:58 PM
> To: Ye, Bin
> Subject: Re: [R] Install Rmpi on Fedora with mpich2 installed.
>
> Hi Bin,
>
> I don't have direct experience installing Rmpi on mpich2, but you can
> specify the location of the mpi.h files with commands like
>
> ./configure --with-mpi=/usr/local/mpich2
>
> when in the unpacked Rmpi packate, or
>
> R CMD INSTALL Rmpi_... --configure-args=--with-mpi=/usr/local/mpich2
>
> when installing the package from the command line. The ... are the
> results of tab completion to the Rmpi tarball, and the path
> /usr/local/mpich2 should lead to a direcotry hierarchy such that mpi.h
> will be found in something like /usr/local/mpich2/include/mpi.h (some
> insight into what is going on is in the configure.in file).
>
> Hope that helps!
>
> Martin
>
> "Ye, Bin" <yeb@karmanos.org> writes:
> > Hi, everyone,
> >
> > I want to install Rmpi on a cluster with Fedora linux. It already
> > installed mpich2, but not lam-mpi. I installed R-2.2.0 on it already.
> >
> > And I got error as below:
> >
> > * Installing *source* package 'Rmpi' ...
> > Try to find mpi.h ...
> > checking for gcc... gcc
> > checking for C compiler default output file name... a.out
> > checking whether the C compiler works... yes
> > checking whether we are cross compiling... no
> > checking for suffix of executables...
> > checking for suffix of object files... o
> > checking whether we are using the GNU C compiler... yes
> > checking whether gcc accepts -g... yes
> > checking for gcc option to accept ANSI C... none needed
> > checking how to run the C preprocessor... gcc -E
> > checking for egrep... grep -E
> > checking for ANSI C header files... yes
> > checking for sys/types.h... yes
> > checking for sys/stat.h... yes
> > checking for stdlib.h... yes
> > checking for string.h... yes
> > checking for memory.h... yes
> > checking for strings.h... yes
> > checking for inttypes.h... yes
> > checking for stdint.h... yes
> > checking for unistd.h... yes
> > checking mpi.h usability... no
> > checking mpi.h presence... no
> > checking for mpi.h... no
> > Try to find mpi.h ...
> > Cannot find mpi head file
> > Please check if --with-mpi=/usr/local/mpich2/bin/ is right
> > ERROR: configuration failed for package 'Rmpi'
> > ** Removing '/usr/local/R-2.2.0/library/Rmpi'
> >
> > Somehow it can not find the mpi.h which is in usr/local/mpich2. Can
> > anyone kindly give me some hint on what should be done? Will installing
> > lam-mpi solve the problem? If so, should mpich2 be uninstalled first? Or
> > just modify the path will do?
> >
> > Thanks a lot!
> >
> >
> > Bin
> >
> > ______________________________________________
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>
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https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html Received on Thu Dec 22 23:46:11 2005

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