similar to: random number generator with SNOW/ Parallel/ foreach

Hi, The following function use to work, but now it doesn't giving the error "> CallSnow(, 100) Using snow package, asking for 2 nodes 2 slaves are spawned successfully. 0 failed. Error in checkForRemoteErrors(val) : 2 nodes produced errors; first error: no applicable method for 'lapply' applied to an object of class "list" ". Where this is the

I am trying to run a monte carlo process using snow with a MPI cluster. I have ~thirty processors to run the algorithm on and I want to run it 5000 times and take the average of the output. A very simple way to do this is to divide 5000 by the number of processors to get a number n and tell each processor to run the algorithm n times. I realize there are more efficient ways to manage the

Hello, After getting help to solve part of my problem and some delay on my part, I am posting a more refined version to see if someone can help me further. I am trying to autocalibrate a model in my subject area using the snow and rgenoud packages. I want to use the key function "fn" that is called by genoud() to finalize input, run the model executable, and compute the objective

Hi all, I am trying to use snow package to do a parallel MCMC. I have read a few guides and articles, the following is that I came up with. When I run it I got the error message: Error in checkForRemoteErrors(lapply(cl, recvResult)) : 4 nodes produced errors; first error: could not find function "ui.Next" The data is a longitudinal data with few repeated readings on a number of

Hello, I am trying to do model autocalibration using the snow and rgenoud packages. The function I want to run in task-parallel fashion across multiple machines is one that pre- and post-processes data and runs an external model code. My problem is that external file I/O is happening only in the master node and not in the slaves. I have followed Jasjeet Sekhon's suggestion to test the

Hello all, I am re-posting my previous question with a simpler, more transparent, commented code. I have been ramming my head against this problem, and I wondered if anyone could lend a hand. I want to make parallel a bootstrap of a linear mixed model on my 8-core mac. Below is the process that I want to make parallel (namely, the boot.out<-boot(dat.res,boot.fun, R = nboot) command).

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: -------------------------------------------------------------------------------------------------------

All, I am not understanding the scoping used in foreach when it is used inside a function. I keep getting "could not find function" errors for functions that are in memory when I try to use foreach within a function call. I have a simple example below. "testFun" is in memory and works when called by foreach directly, but when I place foreach in a function called

Hi (Duncan?), The other day I noticed some characters will cause errors in R CMD CHECK because of parse_Rd(), and AFAIK, these chars include '%', '{' and '}'. For example, note the comments in the example section: %~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~% \name{testfun} \Rdversion{1.1} \alias{testfun} \title{ A Test } \description{ A test } \usage{ testfun() } \value{ NULL }

Dear R users, I am running R-2.15.1 in Linux Slackware64-14.0. Here is my minimal working example: testfun <- function (x) { a <- 0; sapply(X="a", FUN=get, envir=sys.frame(which=x)); } Inside R, that is R called from within a Linux terminal, the following code works: testfun(x=5) print(testfun(x=6)) But within rkward the above code fails and the following works: testfun(x=1)

Whas missing the R in the command line: "mpirun -n --hostfile /home/hostfile R --no-save -f rtest.R" Hope this helps mario On 13-Jan-11 22:08, Justin Moriarty wrote: > Hi, > Just wanted to share a working example of doSNOW and foreach for an openMPI cluster. The function eddcmp() is just an example and returns some inocuous warnings. The

<<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

Hi Luke, Ah - I see - thank you! This at least points me to a way on how to "fix" this. I tried setting the srcref attribute to NULL, but the hash value is still different and so is the serialization. So this looks like it is one difference, but not all of them Even if all differences were identified - it still leaves me with different behavior between interactive and batch-mode,

Full_Name: Robert Denham Version: R-2.4.1 OS: Windows Xp Submission from: (NULL) (61.88.57.1) R gui exits without warning when I run a function which has an argument with a default that is not found. This was a result of an error in a function I wrote, but I thought that it should exit more gracefully than it does. Here is an example: testfun <- function(aa=aa) { aa <-

Full_Name: Emmanuel Charpentier Version: 1.6.1 OS: Linux 2.4.20 / Debian Woody Submission from: (NULL) (80.15.78.96) rsprng depends on libraries available in the "genesis" package. However, even when Genesis is installed, the installation of the source package fails for not finding rsprng.h. It turns out that Debian installs it in a subdirectoru of /usr/include, and that the rsprng

Dear expeRts, I struggle with the following problem using snow clusters for parallel computing: I would like to specify l'Ecuyer's random number generator. Base R creates a .Random.seed of length 7, the first value indicating the kind fo random number generator. I would thus like to use the components 2 to 7 as the seed for l'Ecuyer's random number generator. By doing so, I

Hi, I posted this question to the regular help list, but it seems to be this is probably a question that is better addressed on r-devel. Sorry for the double posting. I am using hash-values to cache certain results in R. This caching also depends on the hash-value of the function that is being cached (calculated using the digest package). I noticed that computations that should already be cached

People of R(th), I have been ramming my head against this problem, and I wondered if anyone could lend a hand. I want to parallelize a bootstrap of a linear model on my 8-core mac. Below is the process that I want to parallelize (namely, the m2.ph.rlm.boot<-boot(m2.ph,m2.ph.fun, R = nboot) command). This is an extension of the bootstrapping linear models example in Venables and Ripley to

Hi all, Within a foreach loop with doSNOW, we cant call functions which come from the non-default package. We need to load(require/library) the package once more within the foreach loop. Anyone knows why would happen like this? Is it caused by the snow package and something happened when "snow" parallelize the job? Other than load the package once more with in the foreach loop, is

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