Use separate CI doxygen action #1336

Workflow file for this run

	name: CI
	on:
	push:
	branches:
	- master
	pull_request:
	branches:
	- master

	concurrency:
	group: ${ {github.event_name }}-${{ github.workflow }}-${{ github.ref }}
	cancel-in-progress: ${{github.event_name == 'pull_request'}}

	jobs:
	CI:
	defaults:
	run:
	shell: bash
	env:
	CCACHE_DIR: "${{ github.workspace }}/.ccache"
	CCACHE_MAXSIZE: "10G"
	CCACHE_CPP2: "true"
	ASAN_OPTIONS: "detect_leaks=0"
	strategy:
	matrix:
	distro: ['ubuntu:latest']
	cxx: ['g++', 'clang++']
	backend: ['OPENMP', 'SERIAL']
	cmake_build_type: ['Debug', 'Release']
	kokkos_ver: ['3.7.02']
	bounds_check: ['OFF']
	arborx: ['OFF']
	heffte: ['OFF' ]
	hypre: ['OFF']
	liball: ['OFF']
	silo: ['OFF']
	hdf5: ['OFF']
	coverage: ['OFF']
	include:
	- distro: 'ubuntu:latest'
	cxx: 'g++'
	backend: 'THREADS'
	cmake_build_type: 'Debug'
	kokkos_ver: '3.7.02'
	arborx: 'OFF'
	heffte: 'OFF'
	hypre: 'OFF'
	silo: 'OFF'
	coverage: 'OFF'
	- distro: 'ubuntu:intel'
	cxx: 'icpx'
	backend: 'OPENMP'
	cmake_build_type: 'Release'
	kokkos_ver: '3.7.02'
	arborx: 'OFF'
	heffte: 'OFF'
	hypre: 'OFF'
	coverage: 'OFF'
	- distro: 'ubuntu:intel'
	cxx: 'icpx'
	backend: 'OPENMP'
	cmake_build_type: 'Debug'
	kokkos_ver: '3.7.02'
	arborx: 'OFF'
	heffte: 'OFF'
	hypre: 'OFF'
	coverage: 'OFF'
	- distro: 'ubuntu:intel'
	cxx: 'icpx'
	backend: 'SERIAL'
	cmake_build_type: 'Release'
	kokkos_ver: '3.7.02'
	arborx: 'OFF'
	heffte: 'OFF'
	hypre: 'OFF'
	coverage: 'OFF'
	- distro: 'ubuntu:intel'
	cxx: 'icpx'
	backend: 'SERIAL'
	cmake_build_type: 'Debug'
	kokkos_ver: '3.7.02'
	arborx: 'OFF'
	heffte: 'OFF'
	hypre: 'OFF'
	coverage: 'OFF'
	- distro: 'ubuntu:intel'
	cxx: 'icpx'
	backend: 'SERIAL'
	cmake_build_type: 'Debug'
	kokkos_ver: '3.7.02'
	arborx: 'OFF'
	heffte: 'MKL'
	hypre: 'OFF'
	coverage: 'OFF'
	- distro: 'fedora:latest'
	cxx: 'g++'
	backend: 'OPENMP'
	cmake_build_type: 'Release'
	kokkos_ver: '4.0.00'
	arborx: 'OFF'
	heffte: 'OFF'
	hypre: 'OFF'
	coverage: 'OFF'
	doxygen: 'ON'
	- distro: 'fedora:latest'
	cxx: 'clang++'
	backend: 'OPENMP'
	cmake_build_type: 'Release'
	kokkos_ver: '4.0.00'
	arborx: 'OFF'
	heffte: 'OFF'
	hypre: 'OFF'
	coverage: 'OFF'
	- distro: 'opensuse:latest'
	cxx: 'g++'
	cmake_build_type: 'Release'
	backend: 'OPENMP'
	kokkos_ver: '4.0.00'
	arborx: 'OFF'
	heffte: 'OFF'
	hypre: 'OFF'
	coverage: 'OFF'
	- distro: 'opensuse:latest'
	cxx: 'clang++'
	backend: 'OPENMP'
	cmake_build_type: 'Release'
	kokkos_ver: '4.0.00'
	arborx: 'OFF'
	heffte: 'OFF'
	hypre: 'OFF'
	hdf5: 'HDF5'
	coverage: 'OFF'
	- distro: 'ubuntu:rolling'
	cxx: 'g++'
	cmake_build_type: 'Release'
	backend: 'OPENMP'
	kokkos_ver: '3.7.02'
	arborx: 'OFF'
	heffte: 'OFF'
	hypre: 'OFF'
	coverage: 'OFF'
	- distro: 'ubuntu:rolling'
	cxx: 'clang++'
	backend: 'OPENMP'
	cmake_build_type: 'Release'
	kokkos_ver: '3.7.02'
	arborx: 'OFF'
	heffte: 'OFF'
	hypre: 'OFF'
	coverage: 'OFF'
	- distro: 'fedora:nompi'
	cxx: 'g++'
	backend: 'OPENMP'
	cmake_build_type: 'Debug'
	kokkos_ver: '4.0.00'
	arborx: 'ArborX'
	heffte: 'OFF'
	hypre: 'OFF'
	coverage: 'OFF'
	- distro: 'ubuntu:latest'
	cxx: 'g++'
	backend: 'OPENMP'
	cmake_build_type: 'Release'
	kokkos_ver: '3.7.02'
	arborx: 'ArborX'
	heffte: 'OFF'
	hypre: 'OFF'
	coverage: 'OFF'
	- distro: 'ubuntu:latest'
	cxx: 'g++'
	backend: 'OPENMP'
	cmake_build_type: 'Release'
	kokkos_ver: '3.7.02'
	arborx: 'OFF'
	heffte: 'FFTW'
	hypre: 'OFF'
	coverage: 'OFF'
	- distro: 'ubuntu:latest'
	cxx: 'g++'
	backend: 'OPENMP'
	cmake_build_type: 'Release'
	kokkos_ver: '3.7.02'
	arborx: 'OFF'
	heffte: 'OFF'
	hypre: 'OFF'
	liball: 'libALL'
	coverage: 'OFF'
	- distro: 'ubuntu:latest'
	cxx: 'g++'
	backend: 'OPENMP'
	cmake_build_type: 'Debug'
	kokkos_ver: '3.7.02'
	arborx: 'OFF'
	heffte: 'OFF'
	hypre: 'HYPRE'
	coverage: 'OFF'
	- distro: 'ubuntu:latest'
	cxx: 'g++'
	backend: 'OPENMP'
	cmake_build_type: 'Debug'
	kokkos_ver: '3.7.02'
	arborx: 'OFF'
	heffte: 'OFF'
	hypre: 'OFF'
	silo: 'Silo'
	coverage: 'OFF'
	- distro: 'ubuntu:latest'
	cxx: 'g++'
	backend: 'OPENMP'
	cmake_build_type: 'Debug'
	kokkos_ver: '3.7.02'
	arborx: 'OFF'
	heffte: 'OFF'
	hypre: 'OFF'
	hdf5: 'HDF5'
	coverage: 'OFF'
	- distro: 'ubuntu:latest'
	cxx: 'g++'
	backend: 'OPENMP'
	cmake_build_type: 'Debug'
	kokkos_ver: '3.7.02'
	arborx: 'ArborX'
	heffte: 'FFTW'
	hypre: 'HYPRE'
	liball: 'libALL'
	silo: 'Silo'
	hdf5: 'HDF5'
	bounds_check: 'BoundsCheck'
	coverage: 'OFF'
	- distro: 'ubuntu:latest'
	cxx: 'g++'
	backend: 'OPENMP'
	cmake_build_type: 'Debug'
	kokkos_ver: '3.7.02'
	arborx: 'ArborX'
	heffte: 'FFTW'
	hypre: 'HYPRE'
	liball: 'libALL'
	silo: 'Silo'
	hdf5: 'HDF5'
	coverage: 'ON'
	runs-on: ubuntu-20.04
	timeout-minutes: 30
	container:
	image: ghcr.io/ecp-copa/ci-containers/${{ matrix.distro }}
	options: --security-opt seccomp=unconfined
	# FIXME: remove failing distributions here when passing
	continue-on-error: ${{ (matrix.distro == 'ubuntu:intel' && matrix.backend == 'SERIAL' && matrix.cmake_build_type == 'Release') \|\| matrix.distro == 'opensuse:latest' }}
	steps:
	- name: Cache ccache
	uses: actions/cache@v2
	with:
	path: ${{ env.CCACHE_DIR }}
	key: ccache-${{ matrix.distro }}-${{github.run_id}}
	restore-keys: ccache-${{ matrix.distro }}
	- name: Zero ccache stats
	run: \|
	ccache -z
	- name: Checkout kokkos
	uses: actions/checkout@v3
	with:
	repository: kokkos/kokkos
	ref: ${{ matrix.kokkos_ver }}
	path: kokkos
	- name: Build kokkos
	env:
	BOUNDS: ${{ matrix.bounds_check }}
	working-directory: kokkos
	run: \|
	[[ ${{ matrix.backend }} == "OPENMP" ]] && kokkos_cmake_opts+=( -DKokkos_ENABLE_OPENMP==ON )
	[[ ${{ matrix.backend }} == "THREADS" ]] && kokkos_cmake_opts+=( -DKokkos_ENABLE_THREADS==ON )
	[[ ${BOUNDS} == "BoundsCheck" ]] && kokkos_cmake_opts+=( -DKokkos_ENABLE_DEBUG_BOUNDS_CHECK=ON )
	cmake -B build \
	-DCMAKE_INSTALL_PREFIX=$HOME/kokkos \
	-DCMAKE_CXX_COMPILER=${{ matrix.cxx }} \
	-DCMAKE_CXX_COMPILER_LAUNCHER=ccache \
	-DKokkos_ENABLE_HWLOC=ON \
	-DCMAKE_BUILD_TYPE=${{ matrix.cmake_build_type }} \
	${kokkos_cmake_opts[@]}
	cmake --build build --parallel 2
	cmake --install build
	- name: Checkout arborx
	if: ${{ matrix.arborx == 'ArborX' }}
	uses: actions/checkout@v3
	with:
	repository: arborx/ArborX
	ref: v1.2
	path: arborx
	- name: Build arborx
	if: ${{ matrix.arborx == 'ArborX' }}
	working-directory: arborx
	run: \|
	cmake -B build \
	-DKokkos_ROOT=${HOME}/kokkos \
	-DCMAKE_INSTALL_PREFIX=$HOME/arborx \
	-DCMAKE_CXX_COMPILER=${{ matrix.cxx }} \
	-DCMAKE_CXX_COMPILER_LAUNCHER=ccache \
	-DCMAKE_BUILD_TYPE=${{ matrix.cmake_build_type }}
	cmake --build build --parallel 2
	cmake --install build
	- name: Checkout heffte
	if: ${{ matrix.heffte != 'OFF' }}
	uses: actions/checkout@v3
	with:
	repository: icl-utk-edu/heffte
	ref: v2.3.0
	path: heffte
	- name: Build heffte
	if: ${{ matrix.heffte != 'OFF' }}
	working-directory: heffte
	run: \|
	[[ ${{ matrix.heffte }} == "FFTW" ]] && heffte_cmake_opts+=( -DHeffte_ENABLE_FFTW=ON )
	[[ ${{ matrix.heffte }} == "MKL" ]] && heffte_cmake_opts+=( -DHeffte_ENABLE_MKL=ON )
	cmake -B build \
	-DBUILD_SHARED_LIBS=ON \
	-DCMAKE_INSTALL_PREFIX=$HOME/heffte \
	-DCMAKE_CXX_COMPILER=${{ matrix.cxx }} \
	-DCMAKE_CXX_COMPILER_LAUNCHER=ccache \
	-DCMAKE_BUILD_TYPE=${{ matrix.cmake_build_type }} \
	-DMKL_ROOT=/opt/intel/oneapi/mkl/latest \
	${heffte_cmake_opts[@]}
	cmake --build build --parallel 2
	cmake --install build
	- name: Checkout hypre
	if: ${{ matrix.hypre == 'HYPRE' }}
	uses: actions/checkout@v3
	with:
	repository: hypre-space/hypre
	ref: v2.22.1
	path: hypre
	- name: Build hypre
	if: ${{ matrix.hypre == 'HYPRE' }}
	working-directory: hypre/src
	run: \|
	[[ ${{ matrix.backend }} == 'OPENMP' ]] && hypre_cmake_opts+=( -DHYPRE_WITH_OPENMP=ON )
	cmake -B build \
	-DHYPRE_INSTALL_PREFIX=$HOME/hypre \
	-DCMAKE_CXX_COMPILER=${{ matrix.cxx }} \
	-DCMAKE_CXX_COMPILER_LAUNCHER=ccache \
	-DCMAKE_BUILD_TYPE=${{ matrix.cmake_build_type }} \
	-DHYPRE_WITH_MPI=ON \
	${hypre_cmake_opts[@]}
	cmake --build build --parallel 2
	cmake --install build
	- name: Checkout ALL
	if: ${{ matrix.liball == 'libALL' }}
	run: \|
	git clone --depth 1 --branch v0.9.2 https://gitlab.jsc.fz-juelich.de/SLMS/loadbalancing ALL
	- name: Build ALL
	if: ${{ matrix.liball == 'libALL' }}
	working-directory: ALL
	run: \|
	cmake -B build -DCMAKE_BUILD_TYPE=Release -DCMAKE_INSTALL_PREFIX=$HOME/ALL
	cmake --build build --parallel 2
	cmake --install build
	- name: Checkout Cabana
	uses: actions/checkout@v3
	- name: Build Cabana
	env:
	SANITIZER: ${{ matrix.sanitizer }}
	SILO: ${{ matrix.silo }}
	HDF5: ${{ matrix.hdf5 }}
	run: \|
	if [[ ${SILO} == 'Silo' ]]; then
	cabana_cmake_opts+=( -DCabana_REQUIRE_SILO=ON )
	else
	cabana_cmake_opts+=( -DCMAKE_DISABLE_FIND_PACKAGE_SILO=ON )
	fi
	if [[ ${HDF5} == 'HDF5' ]]; then
	cabana_cmake_opts+=( -DCabana_REQUIRE_HDF5=ON )
	else
	cabana_cmake_opts+=( -DCMAKE_DISABLE_FIND_PACKAGE_HDF5=ON )
	fi
	# FIXME: Add sanitizer for fedora/opensuse when fixed
	if [[ ${SANITIZER} == 'MSAN' ]]; then
	cabana_cmake_opts+=( -DWITH_MSAN=ON )
	elif [[ ${{ matrix.distro }} != "fedora" ]]; then
	if [[ ${{ matrix.distro }} != "opensuse" && ${{ matrix.backend }} != OPENMP ]]; then
	cabana_cmake_opts+=( -DWITH_ASAN=ON )
	fi
	fi
	#FIXME: Run valgrind for all builds once fixed/suppressed
	[[ ${{ matrix.distro }} == "ubuntu" \|\| ${{ matrix.backend }} == OPENMP \|\| ${{ matrix.cmake_build_type }} == Release ]] && cabana_cmake_opts+=( -DVALGRIND_EXECUTABLE=False )
	cmake -B build \
	-DCMAKE_INSTALL_PREFIX=$HOME/Cabana \
	-DMPIEXEC_MAX_NUMPROCS=2 -DMPIEXEC_PREFLAGS="--oversubscribe" \
	-DCMAKE_PREFIX_PATH="$HOME/kokkos;$HOME/arborx;$HOME/heffte;$HOME/hypre;$HOME/ALL" \
	-DCMAKE_CXX_COMPILER=${{ matrix.cxx }} \
	-DCMAKE_CXX_COMPILER_LAUNCHER=ccache \
	-DCMAKE_CXX_FLAGS="-Wall -Wextra -pedantic -Werror $([[ ${{ matrix.cxx }} == icpx ]] && echo -DCMAKE_CXX_FLAGS_DEBUG="-g -O0")" \
	-DCabana_ENABLE_TESTING=ON \
	-DCabana_ENABLE_EXAMPLES=ON \
	-DCabana_ENABLE_PERFORMANCE_TESTING=ON \
	-DCabana_PERFORMANCE_EXPECTED_FLOPS=0 \
	-DCabana_ENABLE_COVERAGE_BUILD=${{ matrix.coverage }} \
	-DCMAKE_BUILD_TYPE=${{ matrix.cmake_build_type }} \
	${cabana_cmake_opts[@]}
	cmake --build build --parallel 2 --verbose
	CTEST_OUTPUT_ON_FAILURE=1 cmake --build build --target test
	cmake --install build
	- name: Test Cabana Export Target
	working-directory: example/core_tutorial/01_hello_world
	run: \|
	cmake -B build \
	-DCMAKE_PREFIX_PATH="$HOME/kokkos;$HOME/arborx;$HOME/heffte;$HOME/hypre;$HOME/Cabana" \
	-DCMAKE_CXX_COMPILER=${{ matrix.cxx }}
	cmake --build build
	- name: Build Doxygen
	if: ${{ matrix.doxygen == 'ON' }}
	run: cmake --build build --target doxygen
	- name: Show ccache stats
	run: \|
	ccache -s
	- name: Upload Report to codecov.io
	if: ${{ matrix.coverage == 'ON' }}
	uses: codecov/codecov-action@v1

	HIP:
	defaults:
	run:
	shell: bash
	env:
	# Needed because FindMPI relies heavily on the compiler wrappers, which aren't used with hipcc
	MPI_LOCATION: /usr/lib/x86_64-linux-gnu/openmpi/
	strategy:
	matrix:
	cxx: ['hipcc']
	cmake_build_type: ['Debug']
	kokkos_ver: ['4.0.01']
	runs-on: ubuntu-20.04
	container: ghcr.io/ecp-copa/ci-containers/rocm:latest
	steps:
	- name: Checkout kokkos
	uses: actions/checkout@v3
	with:
	repository: kokkos/kokkos
	ref: ${{ matrix.kokkos_ver }}
	path: kokkos
	- name: Build kokkos
	working-directory: kokkos
	run: \|
	cmake -B build \
	-DCMAKE_INSTALL_PREFIX=$HOME/kokkos \
	-DCMAKE_CXX_COMPILER=${{ matrix.cxx }} \
	-DCMAKE_BUILD_TYPE=${{ matrix.cmake_build_type }} \
	-DKokkos_ENABLE_HIP=ON \
	-DKokkos_ARCH_VEGA908=ON
	cmake --build build --parallel 2
	cmake --install build
	- name: Checkout arborx
	uses: actions/checkout@v3
	with:
	repository: arborx/ArborX
	ref: v1.2
	path: arborx
	- name: Build arborx
	working-directory: arborx
	run: \|
	# Build without rocthrust (not available in this container)
	cmake -B build \
	-DARBORX_ENABLE_ROCTHRUST=OFF \
	-DKokkos_ROOT=${HOME}/kokkos \
	-DCMAKE_INSTALL_PREFIX=$HOME/arborx \
	-DCMAKE_CXX_COMPILER=${{ matrix.cxx }} \
	-DCMAKE_BUILD_TYPE=${{ matrix.cmake_build_type }}
	cmake --build build --parallel 2
	cmake --install build
	- name: Checkout ALL
	run: \|
	git clone --depth 1 --branch v0.9.2 https://gitlab.jsc.fz-juelich.de/SLMS/loadbalancing ALL
	- name: Build ALL
	working-directory: ALL
	run: \|
	cmake -B build \
	-DCMAKE_BUILD_TYPE=Release \
	-DCMAKE_INSTALL_PREFIX=$HOME/ALL \
	-DCMAKE_CXX_FLAGS="-I${MPI_LOCATION}/include" \
	-DCMAKE_EXE_LINKER_FLAGS="-L${MPI_LOCATION}/lib -lmpi" \
	-DCMAKE_SHARED_LINKER_FLAGS="-L${MPI_LOCATION}/lib -lmpi"
	cmake --build build --parallel 2
	cmake --install build
	- name: Checkout Cabana
	uses: actions/checkout@v3
	- name: Build Cabana
	run: \|
	cmake -B build \
	-DCMAKE_INSTALL_PREFIX=$HOME/Cabana \
	-DMPIEXEC_MAX_NUMPROCS=2 -DMPIEXEC_PREFLAGS="--oversubscribe" \
	-DCMAKE_PREFIX_PATH="$HOME/kokkos;$HOME/arborx;$HOME/heffte;$HOME/ALL" \
	-DCMAKE_CXX_COMPILER=${{ matrix.cxx }} \
	-DCMAKE_CXX_FLAGS="-Wall -Wextra -pedantic -Werror" \
	-DCabana_ENABLE_TESTING=ON \
	-DCabana_ENABLE_EXAMPLES=ON \
	-DCabana_ENABLE_PERFORMANCE_TESTING=ON \
	-DCabana_PERFORMANCE_EXPECTED_FLOPS=0 \
	-DCMAKE_CXX_FLAGS="-I${MPI_LOCATION}/include" \
	-DCMAKE_EXE_LINKER_FLAGS="-L${MPI_LOCATION}/lib -lmpi -lopen-pal" \
	-DCMAKE_SHARED_LINKER_FLAGS="-L${MPI_LOCATION}/lib -lmpi -lopen-pal" \
	-DCMAKE_BUILD_TYPE=${{ matrix.cmake_build_type }} \
	-DCMAKE_DISABLE_FIND_PACKAGE_HDF5=ON \
	-DGPU_TARGETS="gfx908"
	cmake --build build --parallel 2 --verbose
	cmake --install build

	CUDA:
	defaults:
	run:
	shell: bash
	strategy:
	matrix:
	cxx: ['nvcc']
	cmake_build_type: ['Release']
	kokkos_ver: ['3.7.02']
	runs-on: ubuntu-20.04
	container: ghcr.io/ecp-copa/ci-containers/cuda:12.2.0
	steps:
	- name: Checkout kokkos
	uses: actions/checkout@v3
	with:
	repository: kokkos/kokkos
	ref: ${{ matrix.kokkos_ver }}
	path: kokkos
	- name: Build kokkos
	working-directory: kokkos
	run: \|
	cmake -B build \
	-DCMAKE_INSTALL_PREFIX=$HOME/kokkos \
	-DKokkos_ENABLE_CUDA=ON \
	-DKokkos_ARCH_VOLTA72=ON \
	-DKokkos_ENABLE_CUDA_LAMBDA=ON \
	-DCMAKE_BUILD_TYPE=${{ matrix.cmake_build_type }}
	cmake --build build --parallel 2
	cmake --install build
	- name: Checkout arborx
	uses: actions/checkout@v3
	with:
	repository: arborx/ArborX
	ref: v1.2
	path: arborx
	- name: Build arborx
	working-directory: arborx
	run: \|
	cmake -B build \
	-DKokkos_ROOT=${HOME}/kokkos \
	-DCMAKE_INSTALL_PREFIX=$HOME/arborx \
	-DCMAKE_BUILD_TYPE=${{ matrix.cmake_build_type }}
	cmake --build build --parallel 2
	cmake --install build
	- name: Checkout Cabana
	uses: actions/checkout@v3
	- name: Build Cabana
	run: \|
	cmake -B build \
	-DCMAKE_INSTALL_PREFIX=$HOME/Cabana \
	-DMPIEXEC_MAX_NUMPROCS=2 -DMPIEXEC_PREFLAGS="--oversubscribe" \
	-DCMAKE_PREFIX_PATH="$HOME/kokkos;$HOME/arborx;$HOME/heffte;$HOME/ALL" \
	-DCMAKE_CXX_FLAGS="-Wall -Wextra -pedantic -Werror" \
	-DCabana_ENABLE_TESTING=ON \
	-DCabana_ENABLE_EXAMPLES=ON \
	-DCabana_ENABLE_PERFORMANCE_TESTING=ON \
	-DCabana_PERFORMANCE_EXPECTED_FLOPS=0 \
	-DCMAKE_BUILD_TYPE=${{ matrix.cmake_build_type }}
	cmake --build build --parallel 2 --verbose
	cmake --install build

	doxygen:
	name: Doxygen Check and deploy
	runs-on: ubuntu-latest
	steps:
	- name: Checkout Cabana
	uses: actions/checkout@v3
	- name: Generate Cabana doxyfile
	run: \|
	cmake -B build -DDOXYGEN_WARN_AS_ERROR=FAIL_ON_WARNINGS
	cmake --build build --target doxygen
	- name: Doxygen check
	# This uses doxygen 1.9.6 - use new tags when available
	uses: mattnotmitt/doxygen-action@edge
	with:
	doxyfile-path: build/Doxyfile.doxygen
	- name: Doxygen deploy
	uses: peaceiris/actions-gh-pages@v3
	if: github.ref == 'refs/heads/master'
	with:
	github_token: ${{ secrets.GITHUB_TOKEN }}
	publish_dir: html

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Use separate CI doxygen action #1336

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