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Commit 3cd7609a authored by Boman Romain's avatar Boman Romain
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update CUPyDO script

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#!/bin/bash #!/bin/bash
# build CUPyDO and all related solvers / run ctest
#
# usage: build_CUPyDO.sh -b -j 2 : build (using 2 cores)
# build_CUPyDO.sh -b -t : build and test
# build_CUPyDO.sh -b -t -q : build and test (batch mode)
function build_CUPyDO() # profile should be sourced if in batch mode
source ~/.profile
# bash: enable more errors
set -eu
GEOGEN_VERSION=2.0.0
SOL2_VERSION=3.2.2
MODALI_VERSION=v2.0
NATIVESOLID_VERSION=romain # v1.1
PYBEAM_VERSION=master
VLM_VERSION=v2.0
SU2_VERSION=fix_wrap_strong
PFEM3D_VERSION=v2.0.0
# WAVES_VERSION=v2.2.2 # AttributeError: module 'flow' has no attribute 'F0PsPhiInf'
WAVES_VERSION=v2.1.1
PFEM_VERSION=v1.19
METAFOR_VERSION=v3492
CUPYDO_VERSION=lacroix
# Gmsh
# https://gmsh.info/
function get_last_Gmsh()
{ {
# clone/build CUPyDO if [ ! -d Gmsh ] ; then
if [ ! -d CUPyDO ] ; then echo "Gmsh: retrieving gmsh-git-Linux64-sdk.tgz"
git clone git@github.com:ulgltas/CUPyDO.git wget -q https://gmsh.info/bin/Linux/gmsh-git-Linux64-sdk.tgz
tar -xzf gmsh-git-Linux64-sdk.tgz
mv gmsh-git-Linux64-sdk Gmsh
rm gmsh-git-Linux64-sdk.tgz
else
echo "Gmsh: found"
fi fi
}
cd CUPyDO # geoGen (for VLM)
git pull # https://github.com/acrovato/geoGen
git checkout pfem_compatibility_update # full python
git pull
if [ -d build ] ; then function get_geoGen()
rm -rf build {
if [ ! -d geoGen ] ; then
echo "geoGen: retrieving geoGen ${GEOGEN_VERSION}"
wget -q https://github.com/acrovato/geoGen/archive/refs/tags/v${GEOGEN_VERSION}.tar.gz
tar -xf v${GEOGEN_VERSION}.tar.gz
mv geoGen-${GEOGEN_VERSION} geoGen
rm v${GEOGEN_VERSION}.tar.gz
else
echo "geoGen: found"
fi fi
mkdir build
cd build
cmake ..
make -j 6
make install
cd ../..
} }
function build_waves() # sol2 (for PFEM3D)
# https://github.com/ThePhD/sol2
function build_sol2() #
{ {
# clone/build waves if [ ! -d sol2 ] ; then
if [ ! -d waves ] ; then echo "sol2: retrieving sol2 ${SOL2_VERSION}"
git clone git@gitlab.uliege.be:am-dept/waves.git
SOL2_INSTALL_PREFIX=`pwd`/sol2
wget -q https://github.com/ThePhD/sol2/archive/refs/tags/v${SOL2_VERSION}.tar.gz
tar -xf v${SOL2_VERSION}.tar.gz
rm v${SOL2_VERSION}.tar.gz
echo "sol2: building"
cd sol2-${SOL2_VERSION}
if [ -d build ] ; then
rm -rf build
fi
mkdir build
cd build
cmake .. -DCMAKE_INSTALL_PREFIX=${SOL2_INSTALL_PREFIX} #>sol2.cmake.log
cmake --build . --target install -- -j ${NCORES} #>sol2.build.log
cd ../..
rm -rf sol2-${SOL2_VERSION}
else
echo "sol2: found"
fi fi
}
# modali: Modal integrator for fluid-structure computations
# https://github.com/ulgltas/modali
# full python - no build
cd waves function build_modali()
if [ -d build ] ; then {
rm -rf build if [ ! -d modali ] ; then
echo "modali: cloning modali ${MODALI_VERSION}"
git -c advice.detachedHead=false \
clone --quiet \
--branch ${MODALI_VERSION} \
git@github.com:ulgltas/modali.git
else
echo "modali: already cloned"
fi fi
mkdir build
cd build
cmake -DUSE_PY3=OFF -C../CMake/disable-trilinos.cmake ..
make -j 6
cd ../..
} }
function build_PFEM() # NativeSolid (RBM?)
# https://github.com/ulgltas/NativeSolid
function build_NativeSolid()
{ {
# clone/build PFEM if [ ! -d NativeSolid ] ; then
if [ ! -d PFEM ] ; then echo "NativeSolid: cloning NativeSolid ${NATIVESOLID_VERSION}"
git clone git@gitlab.uliege.be:am-dept/PFEM.git git -c advice.detachedHead=false \
clone --quiet git@github.com:ulgltas/NativeSolid.git \
--branch ${NATIVESOLID_VERSION}
else
echo "NativeSolid: already cloned"
fi fi
cd PFEM # requires lapacke/cblas
git pull # lapacke: (sudo apt install liblapacke-dev)
git checkout reorganize_schemes_and_algos # cblas/blas: (sudo apt-get install libopenblas-dev)
git pull
if [ -d build ] ; then if [ ! -f ./NativeSolid/bin/TestCVector ] ; then
rm -rf build echo "NativeSolid: building"
cd NativeSolid
if [ -d build ] ; then
rm -rf build
fi
mkdir build
cd build
cmake -DCMAKE_BUILD_TYPE=Release -Wno-dev .. #>NativeSolid.cmake.log
make -j ${NCORES} #>NativeSolid.make.log
cd ../..
else
echo "NativeSolid: already built"
fi fi
mkdir build
cd build
cmake ..
make -j 6
cd ../..
} }
# pyBeam:
# https://github.com/pyBeam/pyBeam
# requires meson/ninja: sudo apt install meson
function build_NativeSolid() function build_pyBeam()
{ {
# clone/build NativeSolid if [ ! -d pyBeam ] ; then
if [ ! -d NativeSolid ] ; then echo "pyBeam: cloning pyBeam"
git clone git@github.com:ulgltas/NativeSolid.git git -c advice.detachedHead=false \
clone --depth 1 --recursive \
git@github.com:pyBeam/pyBeam.git \
--branch ${PYBEAM_VERSION}
ver=$(python3 -V 2>&1 | sed 's/.* \([0-9]\).\([0-9]\).*/\1\2/')
if [ "$ver" -gt "37" ]; then
# fix meson build file for python3.8
# see https://github.com/mesonbuild/meson/issues/5629
sed -i "s/dependency('python3')/dependency('python3-embed')/g" \
pyBeam/meson.build
fi
else
echo "pyBeam: already cloned"
fi fi
cd NativeSolid if [ ! -f pyBeam/build/bin/pyBeam.py ] ; then
if [ -d build ] ; then echo "pyBeam: building"
rm -rf build cd pyBeam
if [ -d build ] ; then
rm -rf build
fi
mkdir build
meson build --prefix=$PWD/build
ninja -C build install
cd ..
else
echo "pyBeam: already installed"
fi fi
mkdir build
cd build
cmake ..
make -j 6
cd ../..
} }
# VLM
# https://github.com/ulgltas/VLM
function build_modali() function build_VLM()
{ {
# clone modali if [ ! -d VLM ] ; then
if [ ! -d modali ] ; then echo "VLM: cloning VLM ${VLM_VERSION}"
git clone git@github.com:ulgltas/modali.git git -c advice.detachedHead=false \
clone --quiet \
--branch ${VLM_VERSION} \
git@github.com:ulgltas/VLM.git
else
echo "VLM: already cloned"
fi
if [ ! -f VLM/bin/VLM ] ; then
echo "VLM: building"
cd VLM
if [ -d build ] ; then
rm -rf build
fi
mkdir build
cd build
cmake -Wno-dev -DCMAKE_BUILD_TYPE=Release -DPYTHON_WRAPPER=ON ..
make -j ${NCORES}
make install
cd ../..
else
echo "VLM: already built"
fi fi
} }
# SU2
# https://github.com/ulgltas/SU2
function build_SU2()
{
if [ ! -d SU2 ] ; then
echo "SU2: cloning SU2"
git clone --depth 1 git@github.com:ulgltas/SU2.git \
--branch ${SU2_VERSION}
else
echo "SU2: srcs found"
fi
if [ ! -f SU2/build/bin/SU2_CFD ] ; then
echo "SU2: building"
cd SU2
export CXXFLAGS="-O3"
python3 meson.py setup build \
-Denable-pywrapper=true \
-Denable-cgns=false \
-Denable-tecio=false \
-Dwith-mpi=disabled \
-Denable-tests=false \
-Denable-autodiff=true \
--prefix=$PWD/build
./ninja -C build install
cd ..
else
echo "SU2: already installed"
fi
}
# PFEM3D
# https://github.com/ImperatorS79/PFEM3D
# sudo apt install libcgal-dev liblua5.3-dev
#
# ctest runtime: needs slpp (lua parser for python)
# https://github.com/SirAnthony/slpp
# https://pypi.org/project/SLPP/
# => sudo pip3 install slpp
function build_PFEM3D()
{
if [ ! -d PFEM3D ] ; then
echo "PFEM3D: cloning PFEM3D ${PFEM3D_VERSION}"
git -c advice.detachedHead=false \
clone --quiet \
--branch ${PFEM3D_VERSION} \
git@github.com:ImperatorS79/PFEM3D.git
else
echo "PFEM3D: already cloned"
fi
if [ ! -f PFEM3D/build/bin/pfem ] ; then
echo "PFEM3D: building"
BASE=`pwd`
export GMSH=${BASE}/Gmsh
export Sol2_DIR=${BASE}/sol2/lib/cmake/sol2/
export PATH=${GMSH}/bin:${GMSH}/lib:${PATH}
export INCLUDE=${GMSH}/include:${INCLUDE}
export LIB=${GMSH}/lib:${LIB}
cd PFEM3D
if [ -d build ] ; then
rm -rf build
fi
mkdir build
cd build
cmake -Wno-dev -DCMAKE_BUILD_TYPE=Release \
-DUSE_SWIG=1 -DBUILD_TESTING=1 ..
make -j ${NCORES}
cp ${BASE}/Gmsh/lib/libgmsh.so bin/
cd ../..
else
echo "PFEM3D: already built"
fi
}
# Waves
# https://gitlab.uliege.be/am-dept/waves
function build_waves()
{
if [ ! -d waves ] ; then
echo "waves: cloning waves ${WAVES_VERSION}"
git -c advice.detachedHead=false \
clone --quiet \
--branch ${WAVES_VERSION} \
git@gitlab.uliege.be:am-dept/waves.git
else
echo "waves: already cloned"
fi
if [ ! -f waves/build/bin/libwaves.so ] ; then
echo "waves: building"
cd waves
if [ -d build ] ; then
rm -rf build
fi
mkdir build
cd build
cmake -Wno-dev -C../CMake/disable-trilinos.cmake ..
make -j ${NCORES}
cd ../..
else
echo "waves: already built"
fi
}
# PFEM:
# https://gitlab.uliege.be/am-dept/PFEM
function build_PFEM()
{
if [ ! -d PFEM ] ; then
echo "PFEM: cloning PFEM ${PFEM_VERSION}"
git -c advice.detachedHead=false \
clone --quiet \
--branch ${PFEM_VERSION} \
git@gitlab.uliege.be:am-dept/PFEM.git
else
echo "PFEM: already cloned"
fi
if [ ! -f PFEM/build/bin/libpfem.so ] ; then
echo "PFEM: building"
cd PFEM
if [ -d build ] ; then
rm -rf build
fi
mkdir build
cd build
cmake -Wno-dev ..
make -j ${NCORES}
cd ../..
else
echo "PFEM: already built"
fi
}
# Metafor
function build_Metafor() function build_Metafor()
{ {
if [ ! -d Metafor ] ; then if [ ! -d Metafor ] ; then
...@@ -98,86 +358,168 @@ function build_Metafor() ...@@ -98,86 +358,168 @@ function build_Metafor()
# clone # clone
if [ ! -d linuxbin ] ; then if [ ! -d linuxbin ] ; then
echo "Metafor/linuxbin: cloning linuxbin"
git clone git@gitlab.uliege.be:am-dept/linuxbin.git git clone git@gitlab.uliege.be:am-dept/linuxbin.git
fi else
echo "Metafor/linuxbin: already cloned"
fi
if [ ! -d oo_meta ] ; then if [ ! -d oo_meta ] ; then
git clone --depth=10 git@gitlab.uliege.be:am-dept/MN2L/oo_meta.git echo "Metafor/oo_meta: cloning oo_meta ${METAFOR_VERSION}"
git -c advice.detachedHead=false \
clone --recursive --depth=1 \
--branch ${METAFOR_VERSION} \
git@gitlab.uliege.be:am-dept/MN2L/oo_meta.git
else
echo "Metafor/oo_meta: already cloned"
fi fi
# build # build
if [ -d oo_metaB ] ; then if [ ! -f oo_metaB/bin/Metafor ] ; then
rm -rf oo_metaB echo "Metafor/oo_meta: building"
if [ -d oo_metaB ] ; then
rm -rf oo_metaB
fi
mkdir oo_metaB
cd oo_metaB
cmake -Wno-dev -C ../oo_meta/CMake/ubuntu-CUPyDO.cmake ../oo_meta
make -j ${NCORES}
cd ..
else
echo "Metafor/oo_meta: already built"
fi fi
mkdir oo_metaB
cd oo_metaB cd ..
cmake -C ../oo_meta/CMake/ubuntu-CUPyDO.cmake ../oo_meta
make -j 12
cd ../..
} }
function build_SU2() function build_CUPyDO()
{ {
# clone/build SU2 if [ ! -d CUPyDO ] ; then
if [ ! -d SU2.src ] ; then echo "CUPyDO: cloning CUPyDO ${CUPYDO_VERSION}"
mkdir SU2.src git clone --branch ${CUPYDO_VERSION} \
git@github.com:ulgltas/CUPyDO.git
else
echo "CUPyDO: already cloned"
fi fi
cd SU2.src
if [ ! -d SU2 ] ; then if [ ! -f CUPyDO/ccupydo/_CCupydo.so ] ; then
git clone git@github.com:su2code/SU2.git echo "CUPyDO: building"
cd CUPyDO
if [ -d build ] ; then
rm -rf build
fi
mkdir build
cd build
cmake -Wno-dev -DWITH_MPI=OFF ..
make -j ${NCORES}
make install
cd ../..
else
echo "CUPyDO: already built"
fi fi
cd SU2
git checkout tags/v6.2.0
unset MKLROOT # <= MKL should be disabled
./bootstrap
./configure --prefix=`readlink -f ../../SU2` \
CXXFLAGS="-O3" \
--enable-PY_WRAPPER
make -j 12
make install
cd ../..
} }
function build_VLM() function do_build()
{ {
# clone/build VLM # create CUPyDO main folder
if [ ! -d VLM ] ; then if [ ! -d CUPyDO ] ; then
git clone git@github.com:ulgltas/VLM.git mkdir CUPyDO
fi fi
cd VLM cd CUPyDO
if [ -d build ] ; then # build codes
rm -rf build get_last_Gmsh
fi get_geoGen
mkdir build build_sol2
cd build build_modali
cmake .. build_NativeSolid
make -j 6 build_pyBeam
build_VLM
build_SU2
build_PFEM3D
build_waves
build_PFEM
build_Metafor
build_CUPyDO
make install # is it required? # leave CUPyDO main folder
cd ..
cd ../..
} }
function do_tests()
{
echo "do_tests()..."
cd CUPyDO
cd CUPyDO/build
ctest -j ${NCORES} #2>&1 > ctest_stdout.txt
# output the last lines to stdout (useful for shortening mails)
#tail -n 50 ctest_stdout.txt
cd ../../..
echo "done."
}
function usage()
# create CUPyDO main folder {
if [ ! -d CUPyDO ] ; then echo "usage: $0 -b -j 2 : build (using 2 cores)"
mkdir CUPyDO echo " $0 -b -t : build and test"
fi echo " $0 -b -t -q : build and test (batch mode)"
cd CUPyDO exit 1
}
# build codes function go_batch()
{
CMD_TXT="$0 -j ${NCORES}"
if [ "$DO_BUILD" = true ] ; then
CMD_TXT="$CMD_TXT -b"
fi
if [ "$DO_TESTS" = true ] ; then
CMD_TXT="$CMD_TXT -t"
fi
echo "starting script in batch mode:"
echo " $CMD_TXT"
echo $CMD_TXT | at now -m
exit 0
}
NCORES=`nproc --all`
RUNBATCH=false
DO_BUILD=false
DO_TESTS=false
DISPLAY_USAGE=true
build_CUPyDO # -- args
build_waves
build_PFEM
build_Metafor
build_SU2
build_modali
build_NativeSolid
build_VLM
while getopts "j:hbtq" option
do
case $option in
j )
NCORES=$OPTARG ;;
h )
usage ;;
q )
RUNBATCH=true ;;
b )
DO_BUILD=true ;
DISPLAY_USAGE=false ;;
t )
DO_TESTS=true ;
DISPLAY_USAGE=false ;;
* )
echo "[getopts] Bad option: $option" ; exit 1 ;;
esac
done
shift $(($OPTIND - 1))
# leave CUPyDO main folder if [ "$RUNBATCH" = true ] ; then
cd .. go_batch
else
if [ "$DISPLAY_USAGE" = true ] ; then
usage
fi
if [ "$DO_BUILD" = true ] ; then
do_build
fi
if [ "$DO_TESTS" = true ] ; then
do_tests
fi
fi
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