Thank you very much Hugo. Using the command as suggested results exactly the same error:
# R CMD INSTALL --configure-args="--with-Rmpi-include=/usr/lib64/mpi/gcc/openmpi/include --with-Rmpi-libpath=/usr/lib64/mpi/gcc/openmpi/lib64 --with-Rmpi-type=OPENMPI" Rmpi_0.5-4.tar.gz * installing to library ‘/usr/local/lib64/R/library’ * installing *source* package ‘Rmpi’ ... 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 ISO C89... none needed checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/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 libmpi or libmpich ... checking for main in -lmpi... no libmpi not found. exiting... ERROR: configuration failed for package ‘Rmpi’ * removing ‘/usr/local/lib64/R/library/Rmpi’ Best wishes Kristian ________________________________________ Dr. Kristian Unger Arbeitsgruppenleiter Integrative Biologie / Head of Integrative Biology Group Abteilung für Strahlenzytogenetik / Research Unit of Radiation Cytogenetics Tel.: +49-89-3187-3515 Mob.: +49-160-90641879 Am 15.06.11 15:12 schrieb "Hugo Mildenberger" unter <hugo.mildenber...@web.de>: >Hmm, > >looks like there was a trailing blank after the backslash and before end >of line, >resulting in --with-Rmpi-libpath possibly not recognised: > > > \--with-Rmpi-libpath=/usr/lib64/mpi/gcc/openmpi/lib64 \ > >I also doubt there is real need to escape newlines within a string. But >another >possible problem source is that according to R CMD INSTALL --help, the >parameter >is called "--configure-args", not "configure.args". > > >$ R CMD INSTALL >--configure-args="--with-Rmpi-include=/usr/lib64/mpi/gcc/openmpi/include >--with-Rmpi-libpath=/usr/lib64/mpi/gcc/openmpi/lib64 -- >with-Rmpi-type=OPENMPI" Rmpi_0.5-4.tar.gz > >Best > > > >On Wednesday 15 June 2011 14:25:46 Unger, Kristian, Dr. wrote: >> Hi there >> >> I am trying to install Rmpi (version 0.5-4) on our 8-core SUSE Linux >> Enterprise Server 11 SP1. I read all I could find about Rmpi >>installation >> but still cannot get it working. >> >> Here the last command that I used: >> >> R CMD INSTALL >> >>--configure.args="--with-Rmpi-include=/usr/lib64/mpi/gcc/openmpi/include >>\ >> --with-Rmpi-libpath=/usr/lib64/mpi/gcc/openmpi/lib64 \ >> --with-Rmpi-type=OPENMPI" Rmpi_0.5-4.tar.gz >> >> Resulting in the following: >> >> zytosrv01dmi:/home/unger/R_projects/OS # R CMD INSTALL >> --configure-args="--with-Rmpi-include=/usr/lib64/mpi/gcc/openmpi/include >> \--with-Rmpi-libpath=/usr/lib64/mpi/gcc/openmpi/lib64 \ >> --with-Rmpi-type=OPENMPI" Rmpi_0.5-4.tar.gz >> * installing to library Œ/usr/local/lib64/R/library¹ >> * installing *source* package ŒRmpi¹ ... >> 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 ISO C89... none needed >> checking how to run the C preprocessor... gcc -E >> checking for grep that handles long lines and -e... /usr/bin/grep >> checking for egrep... /usr/bin/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 libmpi or libmpich ... >> checking for main in -lmpi... no >> libmpi not found. exiting... >> ERROR: configuration failed for package ŒRmpi¹ >> * removing Œ/usr/local/lib64/R/library/Rmpi¹ >> >> So obviously libmpi is not found. Doing a locate search for "libmpi" >> (straight after updatedb) shows: >> >> zytosrv01dmi:/home/unger/R_projects/OS # locate libmpi >> /opt/mpich/ch-p4/lib64/libmpich.a >> /opt/mpich/ch-p4/lib64/libmpichf90.a >> /opt/mpich/ch-p4/lib64/libmpichf90nc.a >> /opt/mpich/ch-p4/lib64/libmpichfarg.a >> /opt/mpich/ch-p4/lib64/libmpichfsup.a >> /opt/mpich/ch-p4mpd/lib64/libmpich.a >> /opt/mpich/ch-p4mpd/lib64/libmpichf90.a >> /opt/mpich/ch-p4mpd/lib64/libmpichf90nc.a >> /opt/mpich/ch-p4mpd/lib64/libmpichfarg.a >> /opt/mpich/ch-p4mpd/lib64/libmpichfsup.a >> /usr/lib64/mpi/gcc/openmpi/lib64/libmpi_cxx.la >> /usr/lib64/mpi/gcc/openmpi/lib64/libmpi_cxx.so >> /usr/lib64/mpi/gcc/openmpi/lib64/libmpi_cxx.so.0 >> /usr/lib64/mpi/gcc/openmpi/lib64/libmpi_cxx.so.0.0.0 >> /usr/lib64/mpi/gcc/openmpi/lib64/libmpi_f77.la >> /usr/lib64/mpi/gcc/openmpi/lib64/libmpi_f77.so >> /usr/lib64/mpi/gcc/openmpi/lib64/libmpi_f77.so.0 >> /usr/lib64/mpi/gcc/openmpi/lib64/libmpi_f77.so.0.0.0 >> /usr/lib64/mpi/gcc/openmpi/lib64/libmpi_f90.la >> /usr/lib64/mpi/gcc/openmpi/lib64/libmpi_f90.so >> /usr/lib64/mpi/gcc/openmpi/lib64/libmpi_f90.so.0 >> /usr/lib64/mpi/gcc/openmpi/lib64/libmpi_f90.so.0.0.0 >> /usr/lib64/mpi/gcc/openmpi/lib64/libmpi.la >> /usr/lib64/mpi/gcc/openmpi/lib64/libmpi.so >> /usr/lib64/mpi/gcc/openmpi/lib64/libmpi.so.0 >> /usr/lib64/mpi/gcc/openmpi/lib64/libmpi.so.0.0.0 >> >> What lets me assume that the path to libmpi is >> /usr/lib64/mpi/gcc/openmpi/lib64 which I already included in the >>options... >> >> >> How can I get this working? >> >> I would highly appreciate any help on this! >> >> Best wishes >> >> Kristian >> >> >> >> ________________________________________ >> Dr. Kristian Unger >> >> >> Arbeitsgruppenleiter Integrative Biologie / Head of Integrative Biology >> Group >> Abteilung für Strahlenzytogenetik / Research Unit of Radiation >>Cytogenetics >> >> >> Helmholtz Zentrum München >> Deutsches Forschungszentrum für Gesundheit und Umwelt (GmbH) >> Ingolstädter Landstr. 1 >> 85764 Neuherberg >> www.helmholtz-muenchen.de >> Aufsichtsratsvorsitzende: MinDir´in Bärbel Brumme-Bothe >> Geschäftsführer: Prof. Dr. Günther Wess und Dr. Nikolaus Blum >> Registergericht: Amtsgericht München HRB 6466 >> USt-IdNr: DE 129521671 >> >> ______________________________________________ >> R-help@r-project.org mailing list >> https://stat.ethz.ch/mailman/listinfo/r-help >> PLEASE do read the posting guide >>http://www.R-project.org/posting-guide.html >> and provide commented, minimal, self-contained, reproducible code. Helmholtz Zentrum München Deutsches Forschungszentrum für Gesundheit und Umwelt (GmbH) Ingolstädter Landstr. 1 85764 Neuherberg www.helmholtz-muenchen.de Aufsichtsratsvorsitzende: MinDir´in Bärbel Brumme-Bothe Geschäftsführer: Prof. Dr. Günther Wess und Dr. Nikolaus Blum Registergericht: Amtsgericht München HRB 6466 USt-IdNr: DE 129521671 ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.