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Try clusterExport(cl,c("y","fix")) Hao Patrik Waldmann wrote: > I have some additional questions: I want to add an extra matrix that I > keep fixed, but I cannot get the parallel version working, any > suggestions? > > y<-rnorm(1000) > x...
lamboot is launched in zzz.R at: if (.Platform$OS=="unix"){ if(.Call("mpidist",PACKAGE="Rmpi") == 2){ if (length(system("lamnodes",TRUE,ignore.stderr = TRUE)) == 0){ #cat("\n\tLAM/MPI runtime environment is not operating.\n") #cat("\tStarting LAM/MPI...
Windows always behaves different, in particular memory allocation and release. I don't think repeated spawning is good even for MPI itself. Why don't you keep the session and continue your computation? One possible solution is to add a...
> > In sum, the easiest may be to 'hide' the module and deal with this from > the R > side exposing both variants from there and then just calling the one you > have now. I agree - though I don't think you...
Try R CMD ldd path_to_Rmpi.so to see if Rmpi can find libs in /usr/lib64/openmpi/1.3.2-gcc/lib. Otherwise you have to modify env LD_LIBRARY_PATH or modify R script to add at...
Here is my test with 8 core. y<-rnorm(1000) x<-matrix(rnorm(1000*10000),ncol=10000) dimx<-dim(x) library(parallel) cl <- makeCluster(8, methods=FALSE) print(system.time( pval <- unlist(mclapply(1:dimx[2], function(i) summary(lm...
Hi. Can you check if libmpi.so is installed at /opt/openmpi/tcp-intel//lib/? This line seems indicating libmpi.a is checked instead of libmpi.so. Hao /usr/bin/ld: /opt/openmpi/tcp-intel//lib/libmpi.a(comm_init...
Vince, Thanks for the prompt reply. Can you provide more instruction on how I should look at a particular branch and commit the changes to that? When I do git clone, what branch did I get? Hao From: Vincent Carey...
Hi Henrik and David, Thank you very much for your suggestions. I found both meet my needs. In the following code, I found save(obj,file=pathname) would save the content into an object called obj. path <- "~/"; dir.create(path...
Make sure when you are compiling LAM to use --enable-shared in configure. Somehow LAM creates static lib as default and Rmpi needs dynamic lib to work. Hao Blanchette, Marco wrote: > Dear list, > > I am trying without success to install...
Rick, please use ################################### AC_INIT(DESCRIPTION) AC_PROG_CC AC_ARG_WITH(mpi, [ --with-mpi=/opt/lib32/usr/lib Location of MPI library.], [ if test "${withval}" != no; then MPI_ROOT=${withval} MPI_INCLUDE="-I${MPI_ROOT}/include" LDFLAGS="$LDFLAGS -L...
Sorry. I forgot to say that Rmpi needs liblam.so as well. So use > MPI_LIBS="-L${MPI_ROOT}/lib64 -lmpi -lam" Once compiled, use ldd path_to_Rmpi.so to check if all libs are properly set. Again the...
Peter, You can refer to https://gcc.gnu.org/gcc-4.6/cxx0x_status.html to see what features are supported in gcc4.6. Best, -- Hao Ye hye at ucsd.edu > On Jan 27, 2016, at 3:32 PM, Peter...
I also plan to create a R website in Taiwan (locale: Traditional Chinese). My reason is the same as you. Welcome people in taiwan to give me suggestion. ----- Original Message ----- From: "UsuarioR Espa?a" <kurtney_84 at hotmail.com> To...
If Rmpi is compiled successfully but cannot be loaded into R, it may be due to lam's mpi.so not in ld path. Normally I would modify the R script and add a line like (right after the first...
> > So why does the directory /usr/include/hiredis get omitted on OS X? I think this might be a general quirk on OS X. I recall having to manually set the "-I/usr/local/include" flag for any compilations that...
Hi Melwin, Did you try R CMD INSTALL Rmpi_0.5-7.tar.gz --configure-args=--with-mpi=/path_to_lam Your system may have several mpi and Rmpi did not find a right mpi. BTW, when you are installing...
Okay, after some quick search, I did git checkout RELEASE_3_15 git cherry-pick master git push Is this what I should do? From: "Wu, Hao" <hao.wu at emory.edu> Date: Friday, September 30, 2022 at 6:08...
Hi Henrik, I am using your saveObject/loadObject to handle over 1000 matrices. It worked beautifully. Because I need to load those matrices often for evaluating a few functions on them and those matrices do not fit all in memory...
May you put your code and data in the internet? It will be easy for others to find your real problem. ----- Original Message ----- From: <lauramorgana at bluewin.ch> To: <r-help at r-project.org> Sent: Friday, February 20, 2009...
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