similar to: makeCluster() function in doSNOW package hangs

Shouldn't -n be 4 in the bsub command? One master+3 slaves. This was required for snowfall, but I think doSNOW is similar. Hope it helps mario On 16-Dec-10 23:09, Marius Hofert wrote: > Dear expeRts, > > I try to get a minimal example for parallel computing via "foreach" + "doSNOW" to run on a computer cluster (Brutus from

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

The problem causing the stray worker processes when the master fails to open a server socket to listen to connections from workers is not related to timeout in socketConnection(), because socketConnection() will fail right away. It is caused by a bug in checking the setup timeout (PR 17391). Fixed in 76275. Best Tomas On 3/18/19 2:23 AM, Henrik Bengtsson wrote: > (Bcc: CRAN) > >

The CRAN package snow is superseded by the parallel package which is distributed with R since version 2.14.0. Here are the release notes \item There is a new package \pkg{parallel}. It incorporates (slightly revised) copies of packages \CRANpkg{multicore} and \CRANpkg{snow} (excluding MPI, PVM and NWS clusters). Code written to use the higher-level API functions in those packages should

Dear list, When I run an R CMD check --as-cran on my package (pROC) I get the following note: > Uses the superseded package: ?doSNOW? The fact that it uses the doSNOW package is correct as I have the following example in an .Rd file: > #ifdef windows > if (require(doSNOW)) { > registerDoSNOW(cl <- makeCluster(2, type = "SOCK")) > ci(roc2,

Oh, I completely missed that one. It's very neat as it seems to work both on Windows and Unix. Thanks! Xavier On 10/02/15 10:52, Martyn Plummer wrote: > The CRAN package snow is superseded by the parallel package which is > distributed with R since version 2.14.0. Here are the release notes > > \item There is a new package \pkg{parallel}. > > It incorporates (slightly

(Bcc: CRAN) This is a proposal helping CRAN and alike as well as individual developers to avoid stray R processes being left behind that might be produced when an example or a package test fails to set up a parallel::makeCluster(). ISSUE If a package test sets up a PSOCK cluster and then the master process dies for one reason or the other, the PSOCK worker processes will remain running for 30

Hello, I was using snow to parallel-process some code in R-2.10 (32-bit windows. ). The code is as follows: require(foreach) require(doSNOW) cl <- makeCluster(6, type='SOCK') registerDoSNOW(cl) bl2 <- foreach(i=icount(length(unqmrno))) %dopar% { (some code here) } stopCluster(cl) When I run the same code in Windows R-2.11 (either 32-bit or 64-bit), R hangs at

Hi Dominik, from the output, the master process could not "listen" on the port where it expects a connection from the worker. We need to find out why. I'd recommend first to create a minimal reproducible example (and one that does not use future, only parallel, and a minimal number of threads, ideally just 2). Then I'd recommend to check if the problem still exists with

Hi Thomas, thanks for your reply (and thanks for your patience...). I am now using the following minimal reprex: > library(parallel) > cl <- makeCluster(2L) I freshly started the machine and did not open any other app. Just R.app (3.6.1). After executing the second line of code, R seems to hang infinitely and does not respond. The R process itself uses almost no CPU. Unfortunately,

Hi I have managed to install MPICH2 and Rmpi on my Windows 7 machine. I can also run the following code > library(Rmpi) > mpi.spawn.Rslaves() 4 slaves are spawned successfully. 0 failed. master (rank 0, comm 1) of size 5 is running on: MyMaster slave1 (rank 1, comm 1) of size 5 is running on: MyMaster slave2 (rank 2, comm 1) of size 5 is running on: MyMaster slave3

Hi I have managed to install MPICH2 and Rmpi on my Windows 7 machine. I can also run the following code > library(Rmpi) > mpi.spawn.Rslaves() 4 slaves are spawned successfully. 0 failed. master (rank 0, comm 1) of size 5 is running on: MyMaster slave1 (rank 1, comm 1) of size 5 is running on: MyMaster slave2 (rank 2, comm 1) of size 5 is running on: MyMaster slave3 (rank 3, comm

Hi all, The call parallel::makeCluster(1L) hangs infinitely on my MacOS machine which seems to be already reported by some people (e.g., https://stat.ethz.ch/pipermail/r-devel/2018-February/075565.html). However, the solutions posted on SO, GH or R-devel do not work in my case. So far, I unsuccessfully tested ? 1. Couple of reboots 2. Adding 192.0.0.1 to /etc/hosts 3. Using R.app

I know this is not a revolution support forum, but as anyone noticed the following? I have a foreach loop to generate random samples. If I run the exact code below in normal r (2.14.1) it works as expected, but if I run it from revolution 4.2.0 each loop returns the same numbers. The only way I can get revolution to give different numbers is using 1 instead of 8 in registerDoSNOW(makeCluster(8,

Hello, I'm running some code that requires untaring many files in the first step. This takes a lot of time and I'd like to do this in parallel, if possible. If it's the disk reading speed that is the bottleneck I guess I should not expect an improvement, but perhaps it's the processor. So I want to try this out. I'm working on windows 7 with R 2.15.1 and the latest foreach

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

Dear list, i have some problems using the snow package to create a SOCK cluster. The errors just occour irregularly but it seems to me that they occour when I try to create more than one cluster on the same machine via different R instances started via submitting LSF jobs to a cluster. Does anyone have an idea how to solve this or where to start digging for solutions? The error messages

I am trying to do parallel programming and I tried this library(doSNOW) library(foreach) testfunc<-function(x){ x<-x+1 x } noc<-2 cl <- makeCluster(do.call(rbind,rep(list("localhost"),noc)), type = "SOCK") registerDoSNOW(cl) clusterExport(cl=cl,c("testfunc.r")) testl<-foreach(pp=1:2) %dopar% { testfunc(pp) } And this works but if I try to

Dear All, I have three classes of questions about generating random numbers with different packages (windows xp 32bit R). . 1. Suppose I would like to use package *foreach*, can I use current Sys.time as a seed? Although I can get the time up to1e-6 second precesion, the code below dose not work well on a local machine with two cores. ################# library(foreach) library(snow)

Dear expeRts, This is a similar post as on R-SIG-MAC [I didn't receive an answer there; not sure if it was the right place to post either]. I'm running R version 2.12.1 (Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit)) on a MacBook Pro under Mac OS X 10.6.6. The following minimal example runs fine under this setup. However, if I am connected to a server via a VPN client [Cisco