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Rhpc

Note: This package requires an MPI library.

Installation (Build)

*nix-based OS

OpenMPI or MPICH2

To build a compressed source package (recommended):

apt install qpdf ghostscript
R CMD build --compact-vignettes=both Rhpc
R CMD INSTALL Rhpc_0.yy-yday.tar.gz

Other MPI implementations (example: Fujitsu MPI)

R CMD INSTALL Rhpc_0.yy-yday.tar.gz \
   --configure-args='--with-mpi-cflags=-I/opt/FJSVplang/include64/mpi/fujitsu \
                     --with-mpi-ldflags="-lmpi_f -lfjgmp64 -L/opt/FJSVpnple/lib -ljrm -L/opt/FJSVpnidt/lib -lfjidt -L/opt/FJSVplang/lib64 -lfj90i -lfj90f -lelf -lm -lpthread -lrt -ldl"'

Windows (MS-MPI)

You need to set the MSMPI environment variables.

Example (checking MS-MPI environment variables):

C:\Users\boofoo>set MSMPI
MSMPI_INC=C:\Program Files (x86)\Microsoft SDKs\MPI\Include\
MSMPI_LIB64=C:\Program Files (x86)\Microsoft SDKs\MPI\Lib\x64\

Program Launch

*nix-based OS

Via Rhpc shell (batch execution)

Use the Rhpc shell generated in the package root directory.

mpirun -n 4 ~/R/x86_64-unknown-linux-gnu-library/4.6/Rhpc/Rhpc CMD BATCH -q --no-save test.R

Dynamic launch inside an R session (MPI_Comm_Spawn)

If your environment supports it, you can dynamically spawn workers after starting R.

library(Rhpc)
Rhpc_initialize()
cl <- Rhpc_getHandle(4)    # set number of workers
Rhpc_worker_call(cl, Sys.getpid)
# Example output:
# [[1]] [1] 10571
# [[2]] [1] 10572
# ...
Rhpc_finalize()
q("no")

Microsoft Windows

First, install MS-MPI from the Microsoft Download Center.

Use in RGui

On Windows, Rhpc uses the fakemaster program so that MPI can be used from GUI environments like RGui. Rhpc_getHandle() runs mpiexec in the background and transfers the MPI environment to the current R process.

Note: Do not close the mpiexec or fakemaster command prompt windows that open during execution.

library(Rhpc)
# Specify mpiexec arguments if needed
options(Rhpc.mpiexec="mpiexec -hosts=host1 -n 1")

Rhpc_initialize()
cl <- Rhpc_getHandle(3)
Rhpc_worker_call(cl, Sys.getpid)
Rhpc_finalize()
q("no")

• Note: Some versions of MS-MPI may have limitations for multi-node launch using MPI_Comm_spawn (confirmed to work on single node only).

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
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