Dear knowledgeable experts :-), I am trying to get openmpi, Rmpi and SNOW running on a Myrinet/GM cluster. I'm not an IT expert, but I surely could use a working installation of Rmpi and SNOW.
I try to load the Rmpi library and get the following: > library(Rmpi) [master:07230] mca: base: component_find: unable to open osc pt2pt: file not found (ignored) -------------------------------------------------------------------------- [0,0,0]: Myrinet/GM on host master was unable to find any NICs. Another transport will be used instead, although this may result in lower performance. Then if I start a cluster, only nodes on Master can be seen and initiated Here is environment, configuration and installation information: # configuration of openmpi ./configure --prefix=/opt/openmpi --with-gm=/opt/gm/2.1.21/2.6.11-21smp --with-sge=/opt/sge --disable-mpi-f90 #installation of Rmpi /usr/local/bin/R CMD INSTALL Rmpi_0.5-5.tar.gz \ --configure-args=--with-mpi=/opt/openmpi R version 2.6.1 (2007-11-26) #master environment [EMAIL PROTECTED]:~> env LESSKEY=/etc/lesskey.bin NNTPSERVER=news INFODIR=/usr/local/info:/usr/share/info:/usr/info MANPATH=/opt/sge/man:/usr/local/man:/usr/local/share/man:/usr/share/man:/usr/X11R6/man:/opt/gnome/share/man:/opt/c3-4/man HOSTNAME=master GNOME2_PATH=/usr/local:/opt/gnome:/usr XKEYSYMDB=/usr/X11R6/lib/X11/XKeysymDB HOST=master TERM=xterm SHELL=/bin/bash PROFILEREAD=true HISTSIZE=1000 SSH_CLIENT=::ffff:10.15.1.179 51565 22 QTDIR=/usr/lib/qt3 OLDPWD=/opt/openmpi/bin SSH_TTY=/dev/pts/6 GROFF_NO_SGR=yes JRE_HOME=/usr/lib/jvm/java/jre USER=pearman LS_COLORS=no=00:fi=00:di=01;34:ln=00;36:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=4 0;31:ex=00;32:*.cmd=00;32:*.exe=01;32:*.com=01;32:*.bat=01;32:*.btm=01;32:*.dll=01;32:*.tar=00; 31:*.tbz=00;31:*.tgz=00;31:*.rpm=00;31:*.deb=00;31:*.arj=00;31:*.taz=00;31:*.lzh=00;31:*.zip=00 ;31:*.zoo=00;31:*.z=00;31:*.Z=00;31:*.gz=00;31:*.bz2=00;31:*.tb2=00;31:*.tz2=00;31:*.tbz2=00;31 :*.avi=01;35:*.bmp=01;35:*.fli=01;35:*.gif=01;35:*.jpg=01;35:*.jpeg=01;35:*.mng=01;35:*.mov=01; 35:*.mpg=01;35:*.pcx=01;35:*.pbm=01;35:*.pgm=01;35:*.png=01;35:*.ppm=01;35:*.tga=01;35:*.tif=01 ;35:*.xbm=01;35:*.xpm=01;35:*.dl=01;35:*.gl=01;35:*.aiff=00;32:*.au=00;32:*.mid=00;32:*.mp3=00; 32:*.ogg=00;32:*.voc=00;32:*.wav=00;32: LD_LIBRARY_PATH=/opt/openmpi/lib:/opt/sge/lib/lx24-amd64 XNLSPATH=/usr/X11R6/lib/X11/nls HOSTTYPE=x86_64 PAGER=less XDG_CONFIG_DIRS=/usr/local/etc/xdg/:/etc/xdg/:/etc/opt/gnome/xdg/ C3_PATH=/opt/c3-4 MINICOM=-c on MAIL=/var/mail/pearman PATH=/opt/openmpi/bin:/opt/sge/bin/lx24-amd64:/opt/mpich/1.2.6..14b/x86_64/gcc//bin:/opt/gm/2.1 .21/2.6.11-21smp/bin:/opt/c3-4:/home/pearman/bin:/usr/local/bin:/usr/bin:/usr/X11R6/bin:/bin:/u sr/games:/opt/gnome/bin:/opt/kde3/bin:/opt/pathscale/bin CPU=x86_64 JAVA_BINDIR=/usr/lib/jvm/java/bin INPUTRC=/etc/inputrc PWD=/home/pearman JAVA_HOME=/usr/lib/jvm/java LANG=en_US.UTF-8 PYTHONSTARTUP=/etc/pythonstart SGE_ROOT=/opt/sge SDK_HOME=/usr/lib/jvm/java C3_RSH=ssh TEXINPUTS=:/home/pearman/.TeX:/usr/share/doc/.TeX:/usr/doc/.TeX JDK_HOME=/usr/lib/jvm/java SHLVL=1 HOME=/home/pearman LESS_ADVANCED_PREPROCESSOR=no OSTYPE=linux LS_OPTIONS=-N --color=tty -T 0 XCURSOR_THEME=crystalwhite WINDOWMANAGER=/usr/X11R6/bin/kde GTK_PATH=/usr/local/lib/gtk-2.0:/opt/gnome/lib/gtk-2.0:/usr/lib/gtk-2.0 GM_PATH=/opt/gm/2.1.21/2.6.11-21smp [EMAIL PROTECTED],UTF-8,ISO-8859-15,CP1252 LESS=-M -I MACHTYPE=x86_64-suse-linux LOGNAME=pearman GTK_PATH64=/usr/local/lib64/gtk-2.0:/opt/gnome/lib64/gtk-2.0:/usr/lib64/gtk-2.0 CVS_RSH=ssh XDG_DATA_DIRS=/usr/local/share/:/usr/share/:/etc/opt/kde3/share/:/opt/kde3/share/:/opt/gnome/sh are/ MPICH_PATH=/opt/mpich/1.2.6..14b/x86_64/gcc/ ACLOCAL_FLAGS=-I /opt/gnome/share/aclocal SSH_CONNECTION=::ffff:10.15.1.179 51565 ::ffff:10.30.1.15 22 PKG_CONFIG_PATH=/opt/gnome/lib64/pkgconfig LESSOPEN=lessopen.sh %s INFOPATH=/usr/local/info:/usr/share/info:/usr/info:/opt/gnome/share/info LESSCLOSE=lessclose.sh %s %s G_BROKEN_FILENAMES=1 JAVA_ROOT=/usr/lib/jvm/java COLORTERM=1 _=/usr/bin/env [EMAIL PROTECTED]:~> which mpirun /opt/openmpi/bin/mpirun Also note: mpich is also installed and is also in the PATH, after openmpi BTW. I have seen a number of posts concerning the pt2pt error message. Still, I was unable to understand how they might apply to fixing the current problem. Help would be greatly appreciated. Peter ______________________________________________ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
