similar to: mpirun question with Rmpi

Dear R People: I'm having some trouble with mpiexec and Rmpi. I would like to be able to pass in the number of "children" via the mpiexec command (from the command line). this is in SUSE10.1, with R-2.7.1 Here are my files: cat eb.R library(Rmpi) mpi.remote.exec(paste("i am",mpi.comm.rank(),"of",mpi.comm.size())) mpi.quit() hodgesse at

Dear R People: I am having some trouble with the snow package. It requires MPICH2 and Rmpi. Rmpi is fine. However, I downloaded the MPICH2 package, and installed. There is no mpicc, mpirun, etc. Does anyone have any suggestions, please? Thanks in advance! Sincerely, Erin Hodgess Associate Professor Department of Computer and Mathematical Sciences University of Houston - Downtown mailto:

Dear R Debian Users: I wrote a quick C program (eventually to become R code) and compiled it as: mpicc -o greet greet.c So far so good. Now when I run mpirun, this happens: erin at erin-laptop:~$ mpirun -np 2 greet ----------------------------------------------------------------------------- It seems that there is no lamd running on the host erin-laptop. This indicates that the LAM/MPI

Hi, I am working on a 64-bit rocks cluster and am relatively new to the R package. I am trying to get Snow working with R and Rmpi and have run into the following issue. R is able to load the Rmpi and snow libraries and is able to run simple commands both interactively and batch as follows: -------------------------------------------------------------------------------------------------------

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: Anybody knows how to run Rmpi through PBS (Portable Batch System) on a cluster computer. I'm using a supercomputer which require to submit jobs to PBS queue for dispatching. I tried use mpirun in my PBS script. But all my Rslaves are spawned to the same node. This is not desired. Any suggestions are welcome! Thanks in advance. ======================================== Shengqiao Li

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, 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

Hi team, I am beginning on R and I try to install Rmpi library and I have problems, I have installed LAM-MPI on Rocks; [rcnavarro at hpc-cip ~]$ laminfo LAM/MPI: 7.1.1 Prefix: /opt/lam/gnu Architecture: x86_64-unknown-linux-gnu Configured by: root Configured on: Wed Oct 19 18:12:25 EDT 2005 Configure host: rocks-156.sdsc.edu Memory

Dear R People: I'm having trouble installing Rmpi on a debian machine. Here is my output: bccd at node000:~$ /bccd/home/bccd bccd at node000:~$ bccd at node000:~$ export RMPI_TYPE=OPENMPI bccd at node000:~$ R CMD INSTALL Rmpi_0.5-9.tar.gz * installing to library '/bccd/home/bccd/R/x86_64-pc-linux-gnu-library/2.15' * installing *source* package 'Rmpi' ... checking for gcc...

Hello together! I've Debian 6.0.3 with OpenSSH_5.5p1 and problem with the execution of remote commands via ssh. It seems as if the first command isn't looked up in all "$PATH" dirs. Here normally I should get the version information of mpirun twice but the first one fails: $ ssh cluster2 mpirun --version ; mpirun --version bash: mpirun: command not found mpirun (Open MPI) 1.4.3

Just wondering if anyone can shed some light into an issue we are having with compat-openmpi after upgrading CentOS to version 6.5 Some of our cluster applications are dependent on an older version of OpenMPI, so we are using compat-openmpi. Up to CentOS 6.4 this was version 1.4.3: % /usr/lib64/compat-openmpi/bin/mpirun -V mpirun (Open MPI) 1.4.3 but after the upgrade to CentOS 6.5 it

I have a network of four machines set up. I'm having trouble spawning my slaves on these machines. All the examples I have found so far use makeCluster with type="MPI", and I guess I'm missing some kind of cluster configuration in my environment variables because all my clusters are formed on the machine where my initial session is running. Can anyone refer me to a link that

Sorry for wasting your time with an incorrect diagnosis in my previous mail! I'm running my script using mpirun -mp 4 and using snowfall+Rmpi on Linux 64bits. I receive the following error, that terminates the run. Any idea? I'm able to reproduce the problem with a minimal script (below). If n < 16371 it completes 9 iterations without problems. Already at 16371 it dies at iteration 7

Dear R People: I'm trying to install Rmpi (latest version) on Ubuntu. However, I'm getting the following error: erin at erin-Y480:~$ R R version 2.15.1 (2012-06-22) -- "Roasted Marshmallows" Copyright (C) 2012 The R Foundation for Statistical Computing ISBN 3-900051-07-0 Platform: x86_64-pc-linux-gnu (64-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are

Please remove me from the mailing list -----Original Message----- From: r-help-bounces at stat.math.ethz.ch To: Shengqiao Li Cc: r-help Sent: 24/03/2004 10:10 AM Subject: Re: [R] Rmpi and PBS On Tue, 2003-12-30 at 08:39, Shengqiao Li wrote: > Hello: > > Anybody knows how to run Rmpi through PBS (Portable Batch System) on a > cluster computer. I'm using a supercomputer which

Hi R people: I installed R-2.6.0 on a Red Hat Linux system and am now trying to install the Rmpi package. The installation cannot seem to find the mpi.h file, even though it exists. Is there a variable that I should be exporting into the process, please? Thanks in advance, Sincerely, Erin Hodgess mailto: hodgess at gator.uhd.edu

Dear R People: I have a data frame, xm1, which has 12 rows and 4 columns. If I put is xm1[,-4], I get all rows, and columns 1 - 3, which is as it should be. Now, is there a way to use the names of the columns to omit them, please? Thanks so much in advance! Sincerely, Erin -- Erin Hodgess Associate Professor Department of Computer and Mathematical Sciences University of Houston - Downtown

hello all i am busy testing some code that will be used for parallel computations on a Moab cluster. I have written a C++ program and am linking it with R using the .C command - this works correctly. Extracts of the r code (as well as the *.sh file) is included below. I am able to run the code successfully if I remove all of the doMPI commands. i.e. outs=.C("prog1", all of the

Hi again. I'm putting together a little project with R, python, and a website. So I have an HTML file, a py file, an R file. Here is the HTML file: <form action="/cgi-bin/radio4.py" method="post" target="_blank"> <input type="radio" name="subject" value="Integrate" /> Integrate <input type="radio"