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Hello, I plan to use R with my cluster with OpenMPI. I need the packaged 'snow' and 'Rmpi' for that, however, I get an error while downloading and installing them: When I do a: install.packages("Rmpi", dependencies=T) I get this error: checking for mpi.h... no Try to find libmpi.so or libmpich.a checking for main in -lmpi... no libmpi not found.

Hi, I was trying to install the package Rmpi on a hpc cluster running SGE. The command, and the sessionInfo() is as follows: =========================================== > install.packages("Rmpi",dependencies=TRUE) also installing the dependency ‘rsprng’ trying URL ' http://www.ibiblio.org/pub/languages/R/CRAN/src/contrib/rsprng_1.0.tar.gz' Content type

Dear People, This may not be the right place to ask a question about Rmpi, but I don't know of a better one. I am trying to get a simple program working using Rmpi with the model of 1 R master and n C slaves. What I am trying to do is have each of the C slaves generate a random number from U[0,1], and then have the master collect all n numbers as a vector and output it. However even doing

When I try to install Rmpi, it has a dependency rsprng which, as its description says: Provides interface to SPRNG 2.0 APIs I installed it on Mepis by installing the appropriate debs with minimal drama. In the rpm world of Fedora, no such luxury. Installing rsprng fails because: checking sprng.h usability... no checking sprng.h presence... no checking for sprng.h... no Cannot find sprng 2.0

Although this query was inspired by distributed random number generation, one of the questions (#2 below) is a single-machine issue. I call C++ code from R to generate simulated data. I'm doing this on a cluster, and use rmpi and rsprng. While rsprng randomizes R-level random numbers (e.g., from runif), it has no effect on the C code, which is completely SPRNG and MPI ignorant. Currently I

Hi I have a few problems installing/updating packages with complicated dependencies. For example, the Rmpi package: update.packages(...) checking for mpi.h... no configure: error: "Cannot find mpi.h header file" ERROR: configuration failed for package ?Rmpi? So I tried: >install.packages("Rmpi",configure.args="--with-mpi=/usr/lib/openmpi") Trying to find

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

Rmpi is not currently available on CRAN, and I don't think it has been for a few months. It is available at http://www.stats.uwo.ca/faculty/yu/Rmpi/ Does anyone know its current status? A few months ago I corresponded with the author, who noted some build problems (specifically on Debian) were the hang up, and seemed to be working on it. I wasn't able to get it to work then (on a

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

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

Hi, I am having a problem with installing Rmpi package on redhat linux machine. The R I am using is version 2.10.1. Here’s what happens. > install.packages( ''Rmpi'' ) --- Please select a CRAN mirror for use in this session --- Loading Tcl/Tk interface ... done trying URL ''http://cran.cnr.Berkeley.edu/src/contrib/Rmpi_0.5-9.tar.gz'' Content type

<<insert bug report here>> I cannot install the R package "rsprng" with the following error message: > install.packages("rsprng") trying URL 'http://www.stathy.com/cran/src/contrib/rsprng_0.3-4.tar.gz' Content type 'application/x-tar' length 35934 bytes opened URL ================================================== downloaded 35Kb * Installing

Almost all of the heavy crunching I do in R is like: > for(i in long.list){ + do.something(i) + } > collect.results() Since all the invocations of do.something are independent of one another, there is no reason that I can't run them in parallel. Since my machine has four processors, a natural way to do this is to divide up long.list into 4 pieces and then start 4 jobs, each of which

Hi Guys, I would like to share my experience when installing the Spatial views packages for R. I could not install 32 packages which are parts of the Spatial views, and I use google-search and search to solve ALL those problems for about 2 days. I hope maybe somebody would benefit from my experience. I admitted that I do not have excellent programming skills at all. So, perhaps some of

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

Many thanks to Dr Yu for updating Rmpi for R 2.6.0, and for starting to make the changes to support Open MPI. I have just built the updated Debian package of Rmpi (i.e. r-cran-rmpi) under R 2.6.0 but I cannot convince myself yet whether it works or not. Simple tests work. E.g. on my Debian testing box, with Rmpi installed directly using Open Mpi 1.2.3-2 (from Debian) and using 'r' from

I am running into the following issue that has been previously reported on the R-devel mailing list. The short version is that I'm writing a package for MPI, and I'd like to change CC and SHLIB_LD to "mpicc". Trying to change them in Makevars.in has no effect, because the values are clobbered by /etc/R/Makeconf. Will the following changes to Makeconf.in introduce any problems?

I am trying to install the R package "Rmpi" which needs libmpi. I've installed openmpi and lam in Centos 5.2: [root at rab45-1 /]# rpm -qv openmpi openmpi-1.2.5-5.el5 openmpi-1.2.5-5.el5 [root at rab45-1 /]# rpm -qv lam lam-7.1.2-14.el5 lam-7.1.2-14.el5 But I get the following error message when trying to install Rmpi: /usr/bin/ld: skipping incompatible /usr/lib/lam/lib/libmpi.so

Dear all, I usually run R on my laptop with Windows XP Professional. Now I really want to run R on a computer cluster (4 processors) with Suse Linux Enterprise ver. 10. But I am new with computer cluster. Should I modify my functions in order to use the greater performance and availability than that provided by my laptop? Is there any R manual on parallel computations on

OK, my journey to make lab machines automagically install & update all desirable R packages is nearing an end! The only question I have now is this: How can I control where the system prints the *.Rout file that is created automatically when the R batch program runs. In "man R" I don't find any information about it. When the cron job runs "R_installAll.sh" (see