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# Maintainer: alexanderp <alexisph -at- gmail -dot- com>
# Contributor: halfhorn <mwellsa -at- gmail -dot- com>
# Contributor: jdarch <jda -dot- cloud -plus- archlinux -at- gmail -dot- com>
# Based on the PKGBUILD for R
pkgname=r-mkl
pkgver=3.3.3
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=${pkgver}","r-mkl=${pkgver}")
conflicts=('r')
depends=('intel-mkl'
'intel-compiler-base'
'intel-fortran-compiler'
'bzip2'
'desktop-file-utils'
'gcc-libs'
'libjpeg'
'libpng'
'libtiff'
'libxmu'
'libxt'
'ncurses'
'pango'
'pcre'
'perl'
'readline'
'unzip'
'xz'
'zip'
'zlib')
makedepends=('jdk8-openjdk'
'gcc-fortran'
'tk')
optdepends=('texlive-bin: LaTeX sty files'
'tk: tcl-tk interface')
backup=('etc/R/Makeconf'
'etc/R/Renviron'
'etc/R/ldpaths'
'etc/R/repositories'
'etc/R/javaconf')
options=('!makeflags' '!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')
md5sums=('0ac211ec15e813a24f8f4a5a634029a4'
'44ca875140b148543148b7749c7d6f5e'
'8e0c51650b8a63f110fa7b09e699e9c4'
'1dfa62c812aed9642f6e4ac34999b9fe')
sha512sums=('bcb0d92fc0b22c13e345a2f660e3b3cc5810f6a07c8f2e37949c81308c2b8a5edc322df0394ece563888645442b6c01a3e1e7005aa60bd9beacc718200829e75'
'1a90aed5411d72dd3e7708db0cb92c518e656e1a510ece02ad934131e05b8e683b4a36da8d37198263dc19fb2f3f19656c19c01f9b67974f0d7755974076d0b7'
'1491b01d3d14b86d26c383e00e2305858a52ddd498158c9f7f6b33026ee01f246408b1676cffea73f7783c8c4cf546285705c43c0286adbd75ad77706918b5fe'
'aae388c5b6c02d9fb857914032b0cd7d68a9f21e30c39ba11f5a29aaf1d742545482054b57ce18872eabb6605bbb359b2fc1e9be5ce6881443fdbdf6b67fab3b')
# Build with the Intel Compiler Suite or GCC/GFortran
_CC="icc" # comment this line to build the package with GCC
prepare() {
cd R-${pkgver}
# set texmf dir correctly in makefile
sed -i 's|$(rsharedir)/texmf|${datarootdir}/texmf|' share/Makefile.in
# fix for texinfo 5.X
sed -i 's|test ${makeinfo_version_min} -lt 7|test ${makeinfo_version_min} -lt 0|' configure
# Fix the config script to look in Makeconf for LDFLAGS
sed -i '/LIBS=`eval $query VAR=LIBS`/a\LDFLAGS=`eval $query VAR=LDFLAGS`' src/scripts/config
}
build() {
cd R-${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
source /opt/intel/mkl/bin/mklvars.sh ${_intel_arch}
if [ $_CC = "icc" ]; then
source ${MKLROOT}/../bin/compilervars.sh ${_intel_arch}
_intel_cc_opt=" -O3 -xHost -m64 -qopenmp -fp-model precise -fp-model source -diag-disable=188,308"
# If `-ipo` is used, LDFLAGS need to match CFLAGS
# because IPO is done at link time
# export MAIN_LDFLAGS=${_intel_cc_opt}
export MAIN_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} -I${MKLROOT}/include"
export CXXFLAGS="${_intel_cc_opt} -I${MKLROOT}/include"
export FFLAGS="${_intel_cc_opt} -I${MKLROOT}/include"
export FCFLAGS="${_intel_cc_opt} -I${MKLROOT}/include"
else
_gcc_opt=" -O3 -m64 -fopenmp"
export MAIN_LDFLAGS=" -fopenmp"
# Dynamic Linking
_mkllibs=" -L${MKLROOT}/lib/${_intel_arch} \
-Wl,--no-as-needed \
-l${_gfortran_lib} \
-lmkl_intel_thread \
-lmkl_core \
-liomp5 \
-lpthread \
-lm \
-ldl"
export F77="gfortran"
export FC="gfortran"
export CFLAGS="${_gcc_opt} -I${MKLROOT}/include"
export CXXFLAGS="${_gcc_opt} -I${MKLROOT}/include"
export FFLAGS="${_gcc_opt} -I${MKLROOT}/include"
export FCFLAGS="${_gcc_opt} -I${MKLROOT}/include"
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
# Fixup 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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