similar to: Rmpi : openmpi and mpi.spawn.Rslaves

Hello, We have R working with Rmpi/openmpi, but I'm a little worried. Specifically, (a) the -np flag doesn't seem to override the hostfile (it works fine with fortran hello world) and (b) I appear to have twice as many processes running as I think I should. Rmpi version 0.5.5 Openmpi version 1.1 Viglen HPC with (effectively) 9 blades and 8 nodes on each blade. myhosts file contains

Hello, I've assembled a Multivariate ctv (with a lot of help from Achim Zeleis, who has now posted the view on CRAN). I'd be grateful for comments regarding missing packages / functions. Opinions on the organisation of the view would also be appreciated, as well as having any errors pointed out. I've adopted a rather broad and vague definition of "multivariate", which may

Hi all, now I'm testing R in a "virtual cluster", made it with VirtualBox. This one has 3 nodes, running CentOS 5 and OpenMPI 1.2.8, and the principal node (called "server") exports the /home to other nodes. I have installed R and OpenMPI in /home, in fact, it seems work OK. Editing the openmpi-default-hostfile and run "mpirun -np 3 hostname" I can see the

Hello, I would be extremely grateful if anyone is able to provide any (rather obscure) advice on using R with Condor. I think I'm following Xianhong Xie's instructions (R News 5(2) 13-15) correctly, but my job just stays held in the queue (for days / months). I've checked condor_status to make sure there are plenty of machines available, but can't see any way to attack the

Hi I am trying to utilize my dual core processor (and later a High-performance clusters (HPC) ) by using the Rmpi, snow, snowfall, ... packages, but I am struggling at the beginning, i.e. to initialise the "cluster" on my dual core computer. Whenever I try to initialize it (via sfInit(parallel=TRUE, cpus=2) or mpi.spawn.Rslaves(nslaves=2) ), I get an error message: >

I am running R 2.7.0 on a Suse 9.1 linux cluster with a job scheduler dispatching jobs and openmpi-1.0.1. I have tried running one of the examples at http://ace.acadiau.ca/math/ACMMaC/Rmpi/examples.html in Rmpi and they seem to be working, except mpi.close.Rslaves() hangs. The slaves are closed, but the master doesn't finish its script. Below is the example script and the call to R. The job is

I'm just curious if anyone else has had problems with this configuration. I added the CRAN repository to apt and installed 2.5.0 with apt-get. I then did an install.packages("Rmpi") on cluster nodes. Rmpi loads and lamhosts() shows the nodes, but mpi.spawn.Rslaves() fails (something to do with temp files?). Rmpi works fine with the Edgy-native version of R (2.3.x) and installing

Hi guys, I've spent a few days trying to install Rmpi with no luck. I originally tried using mpich, moved on to mpich2, and then to openmpi. I've gotten the furthest with openmpi, though am still running into this problem and can't figure it out. Can someone help!? Thanks so much in advanced. I'm using an HP Envy laptop with Ubuntu 12.04. Output is below, with the error at the

On Mon, 15 Jul 2002 08:39:05 +0100, Paul Hewson <PHewson at devon.gov.uk> wrote regarding "RE: [R] lattice question: adding slopes to bwplot" Hi, Thanks. It made sense indeed: enough to discover the panel.linejoin function which does what I was looking for. <error here> I also understand now why I didn't find this, and associated, routine:

On FC10 with openmpi and mpich2 installed, the command "R CMD INSTALL Rmpi_0.5-7.tar.gz --configure-args=--with-mpi=/usr/lib64/openmpi" (or /usr/lib64/mpich2) fails with the error ''cannot find mpi.h". Doing a (s)locate indicates no header file labeled as such. Would appreciate any trailheads. TIA, V. -- Vince Fulco, CFA, CAIA 612.424.5477 (universal) vfulco1 at

Greetings. I see a warning message while compiling OpenMPI and would appreciate it if you tell me what it means. This warning happens with any OpenMPI > 1.6.5. Even before starting a cluster, just "sessionInfo" triggers this warning. I'm pasting in the message from R-3.3.2 (this is MRO). Do the R parallel package cluster functions violate the warnings described here? >

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)

Hello R users and developers, I would like to install Rmpi so that I may take advantage of all of the CPUs in my computer, but I cannot get it to install and I am not very good with linux so it is adding to the headache. I have looked through the help archive, but I have not been successful at getting Rmpi to work. I am not sure if I am even installing openMPI correctly in linux. I would really

Guys, I'm having troubles with Rmpi on Linux. I got it to work on windows, but on Linux (SuSE 64 bit), using OpenMPI, I can't seem to get it to work :( When I do library(Rmpi) I get the warning: mca: base: component_find: unable to open osc pt2pt: file not found (ignored) Interestingly enough all the examples from the snow tutorial ( http://www.sfu.ca/~sblay/R/snow.html) work despite

Subject pretty much says it all. I am running 64-bit Ubuntu 8.04, i.e. Hardy Heron, have openmpi installed, and get the following error message with attempted install of Rmpi. sessionInfo() follows. Mark 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

Has anybody tried to use Rmpi with the OpenMPI library instead of LAM/MPI? LAM appears to be somewhat hardcoded in the Rmpi setup. Before I start to experiment with changing this, has anybody else tried Rmpi with non-LAM MPI implementations? Dirk -- Hell, there are no rules here - we're trying to accomplish something. -- Thomas A. Edison

Sorry, this seems like a particularly stupid question, but here goes. It relates to some "sketching" work I'm doing under Windoze. I can only get my C code to find R.h and friends if I shift these header files files and folders into the analogous mingw32 folders. This seems a rather clumsy way of doing things, and I wondered what I've missed? (I'm using the gcc -02

I thought Rcmd SHLIB mycode.c should take care of that, no? Andy > From: Paul Hewson > > Sorry, this seems like a particularly stupid question, but > here goes. It > relates to some "sketching" work I'm doing under Windoze. > > I can only get my C code to find R.h and friends if I shift > these header > files files and folders into the analogous

I have just installed Rmpi on a Suse 9.1 linux cluster with openmpi-1.0.1. I am trying the example included below from the tutorial website. However, I keep getting the following error: > # Load the R MPI package if it is not already loaded. > if (!is.loaded("mpi_initialize")) { + library("Rmpi") + } > > # Spawn as many slaves as possible >

Dear all, I have used the Rmpi package many times before however this time I've installed it as I always do with openMPI tar.gz file direct from the website. I'm installing on my ubuntu 8.10. Linux 2.6.27-11-generic #1 SMP Thu Jan 29 19:28:32 UTC 2009 x86_64 GNU/Linux All i get is: > library(Rmpi) Segmentation fault :~$ Which dumps me back into the shell, and doens't give me much