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Hi Michael, Thanks for the patch. If I understand correctly, we need to pursuit R development term to change the default compiler to mpicc in case the environment R_USE_MPI is detect (use your patch). On Rmpi part, configure...

Hi Paul, Just got back from two conferences. First of all, when R slaves are spawned, they are "naked", meaning they are started with basic R functions/lib even that they are in the same dir with master. You have...

If you are able to ./R CMD INSTALL /root/src/Rmpi/Rmpi_0.5-7.tar.gz --configure-args=--with-mpi=/usr/lam I assume Lam is in /usr/lam. So its lib must be in /usr/lam/lib or...

Thanks, I can do calculatation for each gene, however what I want to do is to fit the model on each and every gene, store their result and then be able to access all of them, then filter on them...

Thank you, Dirk and Douglas. You both provided the answers I need. On 11/12/2011 12:05 PM, Dirk Eddelbuettel wrote: > On 12 November 2011 at 08:58, Douglas Bates wrote: > | Check the declarations in the include file > | > | Rmath...

Hi Marco, Can you check if MPICH2 is compiled with dynamic link libs? Rmpi needs dynamic libs to work. You can use ldd to Rmpi.so to see which libs are linked to it. > ld warning: in /usr/local/lib...

Did you turn on dynamic lib when you were installing lam? The default was static lib. Rmpi needs libmpi.so and liblam.so to work. Also use R CMD ldd path_to_Rmpi.so to see if Rmpi finds all...

It works for me as well. Deb: Can you check if Rmpi runs on its own (spawning slaves) before ppso? If Rmpi is not setting properly on Windows, it will hang. Melwin: Do you have more time consuming codes to...

Paul, rsprng is suggested (not required) in Rmpi. I am using rlecuyer. rlecuyer can be simply installed in R as install.packages("rlecuyer") To use rlecuyer in Rmpi, run mpi.setup.rngstream(). Otherwise use mpi.setup.sprng() for SRRNG. Hao...

> > (I guess one downside of Rcpp modules is the use of external pointers, > which implies they do not serialize / deserialize well?) I think not at all, unless you can force the same memory location for a new R session and...

Thanks. I don't know how many functions there will be. What if g1, g2, g3 have variable number of parameters? say g1 has parg1a, parg1b, and g3 has parg3a, parg3b, parg3c, parg4d. f <- function(X, fs, pars) { process1(X...

Hi Peter, I think Soren had a similar issue in February (about Armadillo not having an optimized solver for triangular matrices): http://lists.r-forge.r-project.org/pipermail/rcpp-devel/2014-February/007147.html I don't think there...

Hi Mark, What is the version of Rmpi you are using? Version 0.5-5 or older had a bug in Rprofile but it was solved since 0.5-6. .Last never intends to be a way to close R...

> mpi.bcast.Robj2slave( myThing ) will send the R object myThing to all slaves. > mpi.bcast.cmd( myThing ) will tell all slaves to run myThing. But this just prints the function myThing itself on slave. You need mpi.bcast.cmd( myThing...

When you install lam, make sure to enable shared lib. The default one is static lib. Rmpi used to be OK with static mpi lib. Not any more. Hao Richard A. Bilonick wrote: > I'm still working on getting Rmpi...

Hi Dirk, Did [2], then [1]. No build errors, but I get the following warnings: > checking hiredis/hiredis.h usability... configure: WARNING: Hiredis headers not found with via default CXXFLAGS and CPPFLAGS > configure: WARNING: manually trying /usr/local/include > configure...

Hi, Thank you all for the the quick response. But there still some questions. 1) nTies = length(x) - length(unique(x)) cannot distinguish vector (1,2,2,2,3), and (1,2,2,3,3).... 2) table(x)[table(x...

Hi Arne, Last year, I was given an access of a Cray cluster to make Rmpi work. After many tries and errors, -lmpich_cray_default64 -lmpl -lopa were used eventually. Whether -lopa is necessary or not for other Cray cluster...

It also looks like you are not initializing the size of Gamete in the "full Rcpp" version, so it is resizing on every loop iteration... Best, -- Hao Ye hye at ucsd.edu On Tue, Aug 11, 2015 at 12:06...

Dear Bioconductor core team, My latest commit of package cytofkit (version 1.4.8) to Bioconductor was built successfully according to the report http://bioconductor.org/checkResults/release/bioc-LATEST/cytofkit/. However the web page still present the old version...