inst/snow/RMPInode.R

In rcastelo/qpgraph: Estimation of genetic and molecular regulatory networks from high-throughput genomics data

local({
    snowlib <- Sys.getenv("R_SNOW_LIB")
    outfile <- Sys.getenv("R_SNOW_OUTFILE")

    args <- commandArgs()
    pos <- match("--args", args)
    args <- args[-(1 : pos)]
    for (a in args) {
        pos <- regexpr("=", a)
        name <- substr(a, 1, pos - 1)
        value <- substr(a,pos + 1, nchar(a))
        switch(name,
               SNOWLIB = snowlib <- value,
               OUT = outfile <- value)
    }

    if (! (snowlib %in% .libPaths()))
        .libPaths(c(snowlib, .libPaths()))
    library(methods) ## because Rscript as of R 2.7.0 doesn't load methods
    library(Rmpi, warn.conflicts=FALSE) ## added warn.conflicts=FALSE to have a silent startup
    library(snow, warn.conflicts=FALSE) ## added warn.conflicts=FALSE to have a silent startup

    sinkWorkerOutput(outfile)
    cat("starting MPI worker\n")
    setDefaultClusterOptions(masterNode=makeMPImaster(1)) ## this depends on the hardcoding of runMPIslave() at /snow/R/mpi.R
    runMPIslave()
})