similar to: loading libraries on MPI cluster

Dear R users, we are trying to do some parallel computing using library(snow). In particular we have a cluster with 3 nodes >cl <- makeCluster(3, type = "MPI") 3 slaves are spawned successfully. 0 failed. and we want to compute the function op_mat (see below) first with the master and then with the cluster using system.time for checking the computational performance.

Dear R-Users, I have a model with a latent variable for a spatio-temporal process. I would like to use EM algorithm to estimate the parameters. Does anybody know how to implement the algorithm in R? Thank you very much in advance, Michela

Hello, I just tried to get Rcmdr package working, resulting in: ---------------------------------------------------------------------- > library(Rcmdr) Loading required package: tcltk Loading required package: lattice Loading required package: foreign Loading required package: abind Loading required package: lmtest Loading required package: multcomp Loading required package: relimp Loading

Context: Windows XP - R 2.0.1 with the latest updated packages (including Rcmdr) I'm trying to load Rcmdr to use the 3d plots (e.g. scatter3d) but here it is what happens: > library(Rcmdr) Loading required package: zoo Loading required package: strucchange Loading required package: sandwich Loading required package: relimp Loading required package: mvtnorm Loading required package:

Dear R-users, I have a little problem that I can't solve by myself. I have a data frame with 2 factors and 8 observations (see the following code): y <- c(1,1,1,2,2,3,3,3) y <- factor(y) levels(y) <- c("a","b","c") x <- c(1,2,3,1,2,1,2,3) x <- factor(x) levels(x) <- c("x","y","z") X <-

# Your mailer is set to "none" (default on Windows), # hence we cannot send the bug report directly from R. # Please copy the bug report (after finishing it) to # your favorite email program and send it to # # r-bugs@r-project.org # ###################################################### Several libraries won't load with rw1090pat. MASS, which is included with the distribution,

Dear R-user, I am trying to use the function 'parLapply' from the 'snow' package which is supposed to work the same wys as 'lapply' but for a parallelized cluster of computers. The function I am trying to call in parallel is 'dudi.pca' (from the 'ade4' package) which performs principal component analyses. When I call this function on a list of

Dear R user, I'm trying to find a solution for optimizing my code. I have to run a 50.000 iteration long simulation and it is absolutely necessary to have an optimized code. I have to do this operation *sum_t ( t(X_t) %*% A %*% X_t )* where X_t is a (d*k) matrix which changes in time and A is a constant in time (d*d) matrix. I have put all my X_t in a three dimensional array X of dimension

Hi everybody! I have the next code which makes a reduction of the *a *variable in two slaves, using the Rmpi package. library(Rmpi) mpi.spawn.Rslaves(nslaves=2) reduc<-function(){ a<-mpi.comm.rank()+2 mpi.reduce(a,type=2, op="prod") return(paste("a=",a)) } mpi.bcast.Robj2slave(reduc) mpi.remote.exec(reduc()) cat("Product: ")

Hi everybody! I have the next code which makes a reduction of the *a *variable in two slaves, using the Rmpi package. library(Rmpi) mpi.spawn.Rslaves(nslaves=2) reduc<-function(){ a<-mpi.comm.rank()+2 mpi.reduce(a,type=2, op="prod") return(paste("a=",a)) } mpi.bcast.Robj2slave(reduc) mpi.remote.exec(reduc()) cat("Product: ")

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.

Dear list, I have a bunch of libraries that are automatically loaded when I start the R environment. How do I remove them? Output: fredrik at theodor:~/dokument/Thesis/Book$ make Making file voicing.tex from voicing.Rnw Loading Tcl/Tk interface ... done Loading required package: tcltk Loading required package: rgl Loading required package: zoo Loading required package: strucchange Loading

When I type library() to see what is installed the following list in RED comes up. Packages in library '/home/jason/R/i686-pc-linux-gnu-library/2.13': abind Combine multi-dimensional arrays aplpack Another Plot PACKage: stem.leaf, bagplot, faces, spin3R, and some slider functions biglm bounded memory linear and

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

Dear Sir There is a acces violation erron (Null pointer) when I have done this. This is repetable but not inmutable. 0. I have put the command "library("Rcmdr")" in the .Rprofile 1. Start R, load module Rcmdr, Input a dataset in RCommander, then save the workspace. I can do any analysis now, no crashes, everything works file but when: 2. I start abain R. It comes up with

# Your mailer is set to "none" (default on Windows), # hence we cannot send the bug report directly from R. # Please copy the bug report (after finishing it) to # your favorite email program and send it to # # r-bugs@r-project.org # ###################################################### Is this intended behavior for the read.fwf(na.strings="-999")? I anticipated that

Full_Name: Hamit AYDIN Version: R v2.1.1 OS: winxp Submission from: (NULL) (194.27.40.230) When I try to run sciviews the consol opens but when I try to import text, spss... it tries to load rmcdr pakage gives me "the pakage can not be find inthe Package or bundle 'Rcmdr' was not found in C:\PROGRA~1\R\rw2011\library. Would you like to install it now?" I know the pakage in

A new version of the 'snow' package for parallel computing in R is available at http://www.stat.uiowa.edu/~luke/R/cluster/snow_0.3-3.tar.gz This substantially revises the way in which worker processes are started to allow snow to be used on Windows and Mac/Windows/Linux combinations. I have successfully used the SOCK version on a standalone Windows machine and combinations of

Dear all, I have a large dataset of randomly generated weighed sample for which I wish to compute a kernel density estimate. I have used the "np" package successfully for smaller datasets, however for the larger ones, they take too long when using the cross validation options for bandwidth selection ("cv.ls" or "cv.ml"). Of course, they are much quicker with

Dear R Users, I am attempting to use snow with rmpi. My configuration is: - R Version 2.7.2, rmpi - RMPI 0.5-6 - DeinoMPI 1.1.0 - Windows Xp SP2 I can sucessfully create a cluster and execute simple commands but for some reason, I cannot change the working directory in my nodes. > noclusters<-2 > cl <- makeCluster(noclusters, type = "MPI") 2 slaves are spawned