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# Maintainer: alexanderp <alexisph -at- gmail -dot- com>
# Previous maintainers:
# - halfhorn <mwellsa -at- gmail -dot- com>
# - jdarch <jda -dot- cloud -plus- archlinux -at- gmail -dot- com>
pkgname=r-mkl
pkgver=4.0.2
pkgrel=1
pkgdesc="Language and environment for statistical computing and graphics, linked to the Intel(R) MKL."
arch=('x86_64')
license=('GPL')
url='http://www.r-project.org/'
provides=("r=${pkgver}")
conflicts=('r' 'microsoft-r-open')
depends=('intel-mkl'
'bzip2'
'curl'
'icu'
'libjpeg'
'libpng'
'libtiff'
'libxmu'
'libxt'
'ncurses'
'openmp'
'pango'
'pcre2'
'perl'
'readline'
'unzip'
'xz'
'zip'
'zlib')
makedepends=('java-environment'
'gcc-fortran'
'tk')
optdepends=('texlive-bin: LaTeX sty files'
'gcc-fortran: needed to compile some CRAN packages'
'tk: tcl-tk interface')
backup=('etc/R/Makeconf'
'etc/R/Renviron'
'etc/R/ldpaths'
'etc/R/repositories'
'etc/R/javaconf')
options=('!emptydirs')
install=r-mkl.install
source=("http://cran.r-project.org/src/base/R-${pkgver%%.*}/R-${pkgver}.tar.gz"
'r.desktop'
'r.png'
'R.conf'
'mklvars.sh')
sha1sums=('ee79a57730ed4786c0d6a05bd050d52a5d0290c1'
'dd214eee232b7aced7366722ad416b6b39be8e1b'
'af80774f5a8d0e669e8ff90662638a0f4e1105d7'
'43668da6cfd1b4455a99f23e79e2059294dddac9'
'2cc0e30ca5de872ea7f5af417b8cac988f3e9f8e')
# Build with the Intel Compiler Suite or GCC/GFortran.
# Comment the following line to build the package with GCC
# _CC="icc"
# update dependencies w.r.t the compiler used
if [[ $_CC = "icc" ]]; then
depends+=('intel-compiler-base'
'intel-fortran-compiler'
'intel-openmp')
fi
prepare() {
cd R-${pkgver}
# set texmf dir correctly in makefile
sed -i 's|$(rsharedir)/texmf|${datarootdir}/texmf|' share/Makefile.in
# align mklvars.sh with Arch Linux intel-mkl
cd ..
sed -i 's|CPRO_PATH=/opt/intel/compilers.*$|CPRO_PATH=/opt/intel|g' mklvars.sh
}
build() {
cd R-${pkgver}
# https://software.intel.com/sites/products/mkl/mkl_link_line_advisor.htm
# Interface Layer: LP64 (R uses 32-bit integers)
_intel_arch=intel64
_intel_lib=mkl_intel_lp64
_gfortran_lib=mkl_gf_lp64
# Set up the environment for MKL
if [ -f /opt/intel/mkl/bin/mklvars.sh ]; then
echo "Sourcing /opt/intel/mkl/bin/mklvars.sh"
source /opt/intel/mkl/bin/mklvars.sh ${_intel_arch}
elif [ -f /usr/bin/mklvars.sh ]; then
echo "Sourcing /usr/bin/mklvars.sh"
source /usr/bin/mklvars.sh ${_intel_arch}
else
echo "Sourcing mklvars.sh"
source ../mklvars.sh ${_intel_arch}
fi
if [[ $_CC = "icc" ]]; then
source ${MKLROOT}/../bin/compilervars.sh ${_intel_arch}
_intel_cc_opt=" -O3 -fPIC -m64 -march=native -fp-model precise -fp-model source -I${MKLROOT}/include"
# export LDFLAGS=" -qopenmp"
export FLIBS=" -lgfortran -lifcore -lifport"
# Dynamic Linking
_mkllibs=" -L${MKLROOT}/lib/${_intel_arch} \
-l${_intel_lib} \
-lmkl_intel_thread \
-lmkl_core \
-liomp5 \
-lpthread \
-lm \
-ldl"
export CC="icc"
export CXX="icpc"
export AR="xiar"
export LD="xild"
export F77="ifort"
export FC="ifort"
export CFLAGS="${_intel_cc_opt}"
export CXXFLAGS="${_intel_cc_opt}"
export FFLAGS="${_intel_cc_opt}"
export FCFLAGS="${_intel_cc_opt}"
else
_gcc_opt=" -m64 -I${MKLROOT}/include"
# export LDFLAGS=" -fopenmp"
# Dynamic Linking
_mkllibs=" -L${MKLROOT}/lib/${_intel_arch} \
-Wl,--no-as-needed \
-l${_gfortran_lib} \
-lmkl_gnu_thread \
-lmkl_core \
-lgomp \
-lpthread \
-lm \
-ldl"
export CC="gcc"
export CXX="g++"
export AR="ar"
export LD="ld"
export F77="gfortran"
export FC="gfortran"
export CFLAGS="${_gcc_opt} $CFLAGS"
export CXXFLAGS="${_gcc_opt} $CXXFLAGS"
export FFLAGS="${_gcc_opt} $FFLAGS"
export FCFLAGS="${_gcc_opt} $FCFLAGS"
fi
./configure --prefix=/usr \
--libdir=/usr/lib \
--sysconfdir=/etc/R \
--datarootdir=/usr/share \
rsharedir=/usr/share/R/ \
rincludedir=/usr/include/R/ \
rdocdir=/usr/share/doc/R/ \
--with-x \
--with-blas="${_mkllibs}" \
--with-lapack \
--enable-R-shlib \
LIBnn=lib
# Place Intel's basic math library prior to GLIBC libm
# sed -i "s/\(^\| \)-lm\( \|$\)/\1-limf -lm\2/g" {./,etc/}Makeconf
# Build the package
make
# make libRmath.so
cd src/nmath/standalone
make shared
}
check() {
cd R-${pkgver}
make check-recommended
}
package() {
cd R-${pkgver}
make DESTDIR="${pkgdir}" install
# install libRmath.so
cd src/nmath/standalone
make DESTDIR="${pkgdir}" install
# Fix R wrapper scripts.
sed -i "s|${pkgdir} ||" "${pkgdir}/usr/bin/R"
rm "${pkgdir}/usr/lib/R/bin/R"
cd "${pkgdir}/usr/lib/R/bin"
ln -s ../../../bin/R
# install some freedesktop.org compatibility
install -Dm644 "${srcdir}/r.desktop" \
"${pkgdir}/usr/share/applications/r.desktop"
install -Dm644 "${srcdir}/r.png" \
"${pkgdir}/usr/share/pixmaps/r.png"
# move the config directory to /etc and create symlinks
install -d "${pkgdir}/etc/R"
cd "${pkgdir}/usr/lib/R/etc"
for i in *; do
mv -f ${i} "${pkgdir}/etc/R"
ln -s /etc/R/${i} ${i}
done
# Install ld.so.conf.d file to ensure other applications access the shared lib
install -Dm644 "${srcdir}/R.conf" "${pkgdir}/etc/ld.so.conf.d/R.conf"
}
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