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install-deps.sh
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#!/bin/bash
set -ex
PROGS=$1
OCN_LINK=$2
RTM_LINK=$3
WAV_LINK=$4
# parameters
ZLIB_VER="1.2.8"
HDF5_VER="1.8.16"
NCCC_VER="4.4.0"
NCXX_VER="4.2"
NCFC_VER="4.4.3"
XERC_VER="3.1.3"
OMPI_VER="1.10.2"
ESMF_VER="7_0_0"
CATM_VER="4.5.0"
# compilers
CC=gcc
FC=gfortran
CXX=g++
export CC=$CC
export FC=$FC
export CXX=$CXX
# arch
gcc -march=native -Q --help=target
# install zlib
cd ${PROGS}
wget "http://zlib.net/zlib-${ZLIB_VER}.tar.gz"
tar -zxvf zlib-${ZLIB_VER}.tar.gz > extract.log
rm -f zlib-${ZLIB_VER}.tar.gz
cd zlib-${ZLIB_VER}
./configure --prefix=${PROGS}/zlib-${ZLIB_VER}
make > make.log
make install >> make.log
export LD_LIBRARY_PATH=${PROGS}/zlib-${ZLIB_VER}/lib:${LD_LIBRARY_PATH}
# install hdf5
cd ${PROGS}
wget "https://www.hdfgroup.org/ftp/HDF5/releases/hdf5-${HDF5_VER}/src/hdf5-${HDF5_VER}.tar.gz"
tar -zxvf hdf5-${HDF5_VER}.tar.gz > extract.log
rm -f hdf5-${HDF5_VER}.tar.gz
cd hdf5-${HDF5_VER}
./configure --prefix=${PROGS}/hdf5-${HDF5_VER} --with-zlib=${PROGS}/zlib-${ZLIB_VER} --enable-fortran --enable-cxx CC=${CC} FC=${FC} CXX=${CXX}
make > make.log
make install >> make.log
export HDF5=${PROGS}/hdf5-${HDF5_VER}
export PATH=${HDF5}/bin:${PATH}
export LD_LIBRARY_PATH=${HDF5}/lib:${LD_LIBRARY_PATH}
# install netcdf
cd ${PROGS}
mkdir netcdf-${NCCC_VER}
cd netcdf-${NCCC_VER}
wget "ftp://ftp.unidata.ucar.edu/pub/netcdf/netcdf-${NCCC_VER}.tar.gz"
tar -zxvf netcdf-${NCCC_VER}.tar.gz > extract.log
rm -f netcdf-${NCCC_VER}.tar.gz
mv netcdf-${NCCC_VER} src
cd src
./configure --prefix=${PROGS}/netcdf-${NCCC_VER} CC=${CC} FC=${FC} LDFLAGS="-L${PROGS}/zlib-${ZLIB_VER}/lib -L${PROGS}/hdf5-${HDF5_VER}/lib" CPPFLAGS="-I${PROGS}/zlib-${ZLIB_VER}/include -I${PROGS}/hdf5-${HDF5_VER}/include"
make > make.log
make install >> make.log
export NETCDF=${PROGS}/netcdf-${NCCC_VER}
export PATH=${NETCDF}/bin:${PATH}
export LD_LIBRARY_PATH=${NETCDF}/lib:${LD_LIBRARY_PATH}
cd ${PROGS}
mkdir netcdf-cxx-${NCXX_VER}
cd netcdf-cxx-${NCXX_VER}
wget "ftp://ftp.unidata.ucar.edu/pub/netcdf/netcdf-cxx-${NCXX_VER}.tar.gz"
tar -zxvf netcdf-cxx-${NCXX_VER}.tar.gz > extract.log
rm -f netcdf-cxx-${NCXX_VER}.tar.gz
mv netcdf-cxx-${NCXX_VER} src
cd src
./configure --prefix=${PROGS}/netcdf-cxx-${NCXX_VER} CC=${CC} CXX=${CXX} LDFLAGS="-L${PROGS}/zlib-${ZLIB_VER}/lib -L${PROGS}/hdf5-${HDF5_VER}/lib -L${PROGS}/netcdf-${NCCC_VER}/lib" CPPFLAGS="-I${PROGS}/zlib-${ZLIB_VER}/include -I${PROGS}/hdf5-${HDF5_VER}/include -I${PROGS}/netcdf-${NCCC_VER}/include"
make > make.log
make install >> make.log
cd ${PROGS}
mkdir netcdf-fortran-${NCFC_VER}
cd netcdf-fortran-${NCFC_VER}
wget "ftp://ftp.unidata.ucar.edu/pub/netcdf/netcdf-fortran-${NCFC_VER}.tar.gz"
tar -zxvf netcdf-fortran-${NCFC_VER}.tar.gz > extract.log
rm -f netcdf-fortran-${NCFC_VER}.tar.gz
mv netcdf-fortran-${NCFC_VER} src
cd src
./configure --prefix=${PROGS}/netcdf-fortran-${NCFC_VER} CC=${CC} FC=${FC} LDFLAGS="-L${PROGS}/zlib-${ZLIB_VER}/lib -L${PROGS}/hdf5-${HDF5_VER}/lib -L${PROGS}/netcdf-${NCCC_VER}/lib" CPPFLAGS="-I${PROGS}/zlib-${ZLIB_VER}/include -I${PROGS}/hdf5-${HDF5_VER}/include -I${PROGS}/netcdf-${NCCC_VER}/include"
make > make.log
make install >> make.log
cd ${PROGS}/netcdf-${NCCC_VER}/bin
ln -s ../../netcdf-fortran-${NCFC_VER}/bin/* .
cd ${PROGS}/netcdf-${NCCC_VER}/lib
ln -s ../../netcdf-cxx-${NCXX_VER}/lib/* .
rm -rf pkgconfig
ln -s ../../netcdf-fortran-${NCFC_VER}/lib/* .
cd ${PROGS}/netcdf-${NCCC_VER}/include
ln -s ../../netcdf-cxx-${NCXX_VER}/include/* .
ln -s ../../netcdf-fortran-${NCFC_VER}/include/* .
# install xerces
cd ${PROGS}
wget "http://ftp.itu.edu.tr/Mirror/Apache//xerces/c/3/sources/xerces-c-${XERC_VER}.tar.gz"
tar -zxvf xerces-c-${XERC_VER}.tar.gz > extract.log
rm -f xerces-c-${XERC_VER}.tar.gz
cd xerces-c-${XERC_VER}
./configure --prefix=${PROGS}/xerces-c-${XERC_VER} CC=${CC} CXX=${CXX}
make > make.log
make install >> make.log
export XERCES=${PROGS}/xerces-c-${XERC_VER}
export LD_LIBRARY_PATH=${XERCES}/lib:${LD_LIBRARY_PATH}
# install openmpi
cd ${PROGS}
wget --no-check-certificate "https://www.open-mpi.org/software/ompi/v1.10/downloads/openmpi-${OMPI_VER}.tar.gz"
tar -zxvf openmpi-${OMPI_VER}.tar.gz > extract.log
rm -f openmpi-${OMPI_VER}.tar.gz
cd openmpi-${OMPI_VER}
./configure --prefix=${PROGS}/openmpi-${OMPI_VER} CC=${CC} CXX=${CXX} FC=${FC}
make > make.log
make install >> make.log
export PATH=${PROGS}/openmpi-${OMPI_VER}/bin:${PATH}
export LD_LIBRARY_PATH=${PROGS}/openmpi-${OMPI_VER}/lib:${LD_LIBRARY_PATH}
# install esmf
cd ${PROGS}
wget --no-check-certificate "https://sourceforge.net/projects/esmf/files/ESMF_${ESMF_VER}/esmf_${ESMF_VER}_src.tar.gz"
tar -zxvf esmf_${ESMF_VER}_src.tar.gz > extract.log
rm -f esmf_${ESMF_VER}_src.tar.gz
mv esmf esmf-${ESMF_VER//_/.}
cd esmf-${ESMF_VER//_/.}
export ESMF_OS=Linux
export ESMF_TESTMPMD=OFF
export ESMF_TESTHARNESS_ARRAY=RUN_ESMF_TestHarnessArray_default
export ESMF_TESTHARNESS_FIELD=RUN_ESMF_TestHarnessField_default
export ESMF_DIR=${PROGS}/esmf-${ESMF_VER//_/.}
export ESMF_TESTWITHTHREADS=OFF
export ESMF_INSTALL_PREFIX=${PROGS}/esmf-${ESMF_VER//_/.}/install_dir
export ESMF_COMM=openmpi
export ESMF_TESTEXHAUSTIVE=ON
export ESMF_BOPT=O
export ESMF_OPENMP=OFF
export ESMF_SITE=default
export ESMF_ABI=64
if [ "$FC" == "gfortran" ]; then
export ESMF_COMPILER=gfortran
elif [ "$FC" == "ifort" ]; then
export ESMF_COMPILER=intel
fi
export ESMF_PIO=internal
export ESMF_NETCDF=split
export ESMF_NETCDF_INCLUDE=${NETCDF}/include
export ESMF_NETCDF_LIBPATH=${NETCDF}/lib
export ESMF_XERCES=standard
export ESMF_XERCES_INCLUDE=${XERCES}/include
export ESMF_XERCES_LIBPATH=${XERCES}/lib
export ESMF_LIB=${ESMF_INSTALL_PREFIX}/lib/lib${ESMF_BOPT}/${ESMF_OS}.${ESMF_COMPILER}.${ESMF_ABI}.${ESMF_COMM}.${ESMF_SITE}
export ESMFMKFILE=${ESMF_LIB}/esmf.mk
export LD_LIBRARY_PATH=${ESMF_LIB}:${LD_LIBRARY_PATH}
export PATH=${ESMF_DIR}/apps/apps${ESMF_BOPT}/${ESMF_OS}.${ESMF_COMPILER}.${ESMF_ABI}.${ESMF_COMM}.${ESMF_SITE}:${PATH}
export PATH=${ESMF_INSTALL_PREFIX}/bin/bin${ESMF_BOPT}/${ESMF_OS}.${ESMF_COMPILER}.${ESMF_ABI}.${ESMF_COMM}.${ESMF_SITE}:${PATH}
make info >> make.log
make >> make.log
make install >> make.log
# add environment variables to .bashrc
echo "***** BEFORE *****"
cat ~/.bashrc
echo "*****************"
echo "export PROGS=${PROGS}" >> ~/.bashrc
echo "export ZLIB=${PROGS}/zlib-${ZLIB_VER}" >> ~/.bashrc
echo "export HDF5=${PROGS}/hdf5-${HDF5_VER}" >> ~/.bashrc
echo "export NETCDF=${PROGS}/netcdf-${NCCC_VER}" >> ~/.bashrc
echo "export XERCES=${PROGS}/xerces-c-${XERC_VER}" >> ~/.bashrc
echo "export MPI=${PROGS}/openmpi-${OMPI_VER}" >> ~/.bashrc
echo "export PATH=${HDF5}/bin:${NETCDF}/bin:${MPI}/bin:${PATH}"
echo "export LD_LIBRARY_PATH=${ZLIB}/lib:${HDF5}/lib:${NETCDF}/lib:${XERCES}/lib:${MPI}/lib:${LD_LIBRARY_PATH}" >> ~/.bashrc
echo "export ESMF_OS=Linux" >> ~/.bashrc
echo "export ESMF_TESTMPMD=OFF" >> ~/.bashrc
echo "export ESMF_TESTHARNESS_ARRAY=RUN_ESMF_TestHarnessArray_default" >> ~/.bashrc
echo "export ESMF_TESTHARNESS_FIELD=RUN_ESMF_TestHarnessField_default" >> ~/.bashrc
echo "export ESMF_DIR=${PROGS}/esmf-${ESMF_VER//_/.}" >> ~/.bashrc
echo "export ESMF_TESTWITHTHREADS=OFF" >> ~/.bashrc
echo "export ESMF_INSTALL_PREFIX=${PROGS}/esmf-${ESMF_VER//_/.}/install_dir" >> ~/.bashrc
echo "export ESMF_COMM=openmpi" >> ~/.bashrc
echo "export ESMF_TESTEXHAUSTIVE=ON" >> ~/.bashrc
echo "export ESMF_BOPT=O" >> ~/.bashrc
echo "export ESMF_OPENMP=OFF" >> ~/.bashrc
echo "export ESMF_SITE=default" >> ~/.bashrc
echo "export ESMF_ABI=64" >> ~/.bashrc
if [ "$FC" == "gfortran" ]; then
echo "export ESMF_COMPILER=gfortran" >> ~/.bashrc
elif [ "$FC" == "ifort" ]; then
echo "export ESMF_COMPILER=intel" >> ~/.bashrc
fi
echo "export ESMF_PIO=internal" >> ~/.bashrc
echo "export ESMF_NETCDF=split" >> ~/.bashrc
echo "export ESMF_NETCDF_INCLUDE=${NETCDF}/include" >> ~/.bashrc
echo "export ESMF_NETCDF_LIBPATH=${NETCDF}/lib" >> ~/.bashrc
echo "export ESMF_XERCES=standard" >> ~/.bashrc
echo "export ESMF_XERCES_INCLUDE=${XERCES}/include" >> ~/.bashrc
echo "export ESMF_XERCES_LIBPATH=${XERCES}/lib" >> ~/.bashrc
echo "export ESMF_LIB=${ESMF_INSTALL_PREFIX}/lib/lib${ESMF_BOPT}/${ESMF_OS}.${ESMF_COMPILER}.${ESMF_ABI}.${ESMF_COMM}.${ESMF_SITE}" >> ~/.bashrc
echo "export ESMFMKFILE=${ESMF_LIB}/esmf.mk" >> ~/.bashrc
echo "export LD_LIBRARY_PATH=${ESMF_LIB}:${LD_LIBRARY_PATH}" >> ~/.bashrc
echo "export PATH=${ESMF_DIR}/apps/apps${ESMF_BOPT}/${ESMF_OS}.${ESMF_COMPILER}.${ESMF_ABI}.${ESMF_COMM}.${ESMF_SITE}:${PATH}" >> ~/.bashrc
echo "export PATH=${ESMF_INSTALL_PREFIX}/bin/bin${ESMF_BOPT}/${ESMF_OS}.${ESMF_COMPILER}.${ESMF_ABI}.${ESMF_COMM}.${ESMF_SITE}:${PATH}" >> ~/.bashrc
echo "***** AFTER *****"
cat ~/.bashrc
echo "*****************"
# install atm model
cd ${PROGS}
if [ "${CATM_VER}" == "4.5.0-rc2" ]; then
wget "https://gforge.ictp.it/gf/download/frsrelease/250/1555/RegCM-4.5.0-rc2.tar.gz"
fi
if [ "${CATM_VER}" == "4.5.0" ]; then
wget "https://gforge.ictp.it/gf/download/frsrelease/252/1580/RegCM-4.5.0.tar.gz"
fi
tar -zxvf RegCM-${CATM_VER}.tar.gz > extract.log
rm -f RegCM-${CATM_VER}.tar.gz
mv RegCM-${CATM_VER} atm
cd atm
./configure --prefix=${PROGS}/atm --enable-cpl CC=${CC} FC="${FC} -mno-avx" MPIFC="${PROGS}/openmpi-${OMPI_VER}/bin/mpif90 -mno-avx"
make > make.log
make install >> make.log
# install ocn model
cd ${PROGS}
wget "${OCN_LINK}"
mv download ocn.tar.gz
tar -zxvf ocn.tar.gz > extract.log
cd ocn
cat roms-r783/Compilers/Linux-gfortran.mk | sed "s/__NETCDFLIB__/${NETCDF////\/}\/lib/g" | sed "s/__NETCDFINC__/${NETCDF////\/}\/include/g" > tmp
mv tmp roms-r783/Compilers/Linux-gfortran.mk
./build.sh > make.log
# install rtm model
cd ${PROGS}
wget "${RTM_LINK}"
mv download rtm.tar.gz
tar -zxvf rtm.tar.gz > extract.log
cd rtm
cat Makefile | sed "s/__FC__/${FC} -O3 -DCPL/g" | sed "s/__NETCDF__/${NETCDF////\/}/g" > tmp
mv tmp Makefile
make install > make.log
# install wav model
cd ${PROGS}
wget "${WAV_LINK}"
mv download wav.tar.gz
tar -zxvf wav.tar.gz > extract.log
cd wav
cat mk/.dirset | sed "s/__PRODADMDIR__/${PROGS////\/}\/wav/g" | sed "s/__FCFLAGS__/-O3 -DCPL/g" | sed "s/__NETCDFLIB__/${NETCDF////\/}\/lib/g" | sed "s/__NETCDFINC__/${NETCDF////\/}\/include/g" > tmp
mv tmp mk/.dirset
cd mk
./create_binaries > make.log