Compiling R against OpenBLAS #install #R

R_OpenBLAS

#####################################################
### How to compile R and link it against OpenBLAS ###
#####################################################

# Assuming no root priviledges on the destination machine,
# so we have to compile our software locally

# set default installation directory:
INSTDIR=$HOME/opt

# place to store the source packages
SOURCES=$HOME/sourcebuilds

# make dirs (if they dont exist)
mkdir $INSTDIR
mkdir $SOURCES

# make sure GNU compiler is being used
export CC=gcc
export CXX=g++


##########################
### Compiling OpenBLAS ###
##########################

cd $SOURCES

# download tarball
wget http://github.com/xianyi/OpenBLAS/archive/v0.2.14.tar.gz

# extract tarball
tar -xf v0.2.14.tar.gz

# change to openblas directory and compile
cd OpenBLAS-0.2.14

# make with multiple threads (option: -j[num_threads], e.g.: "make -j4" to compile with 
# four threads at the same time; Option 'USE_THREAD=1' forces OpenBLAS to compile threaded library

# compile
# make -j4 FC=gfortran USE_THREAD=1 USE_OPENMP=1
make -j1 FC=gfortran USE_THREAD=1 

# install
make PREFIX=${INSTDIR}/OpenBLAS install


###################
### Compiling R ###
###################

cd $SOURCES

# downlad tarball 
wget https://cran.rstudio.com/src/base/R-3/R-3.2.2.tar.gz

# extract tarball
tar -xf R-3.2.2.tar.gz

# change to source directory
cd R-3.2.2

# configure with local prefix and shared-blas
./configure --prefix=${INSTDIR}/R_openblas --enable-BLAS-shlib --with-cairo
# compile R as shared library
#./configure --prefix=${INSTDIR}/R_openblas --enable-BLAS-shlib --enable-R-shlib

# compile
make -j4

# install
make install

### now we manually link R's Blas against our newly
### compiled OpenBLAS

# sometimes the 'lib'-dir appears as 'lib64'
LIBSUFFIX=lib/R/lib

if [ -d ${INSTDIR}/R_openblas/lib64 ]
then
  LIBSUFFIX=lib64/R/lib
fi


# move old blas-library
mv ${INSTDIR}/R_openblas/${LIBSUFFIX}/libRblas.so ${INSTDIR}/R_openblas/${LIBSUFFIX}/libRblas.so.backup

# create a symbolic link to the OpenBLAS library
ln -s ${INSTDIR}/OpenBLAS/lib/libopenblas.so ${INSTDIR}/R_openblas/${LIBSUFFIX}/libRblas.so

### R is now linked against OpenBLAS.
### In order to use this R-Version over the old one, do this:

echo export PATH=${INSTDIR}/R_openblas/bin:${PATH} >> ${HOME}/.bashrc

# do this for current session:
export PATH=${INSTDIR}/R_openblas/bin:${PATH}

# check that correct R is being called now
which R