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Disable boost::multi_array with fortran_storage_order #1138

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Disable boost::multi_array with fortran_storage_order

Disable boost::multi_array with fortran_storage_order #1138

Workflow file for this run

.github/workflows/ci.yml at 2dfc9c5
name: HighFive_CI
concurrency:
group: ${{ github.workflow }}#${{ github.ref }}
cancel-in-progress: true
on:
push:
branches:
- master
- main
- v2.x
pull_request:
branches:
- master
- main
- v2.x
paths-ignore:
- '**.md'
- '**.rst'
- 'doc/**'
env:
HOMEBREW_NO_AUTO_UPDATE: 1 # for reproducibility, dont autoupdate
BUILD_TYPE: RelWithDebInfo
INSTALL_DIR: install
jobs:
# Job testing compiling on several Ubuntu systems + MPI
# =========================================================
#
# For 20.04: bare and activate Boost, OpenCV
# For latest: activate Boost, Eigen, OpenCV, with Ninja
#
# XTensor tests are run for conda/mamba and MacOS
Linux_MPI:
runs-on: ${{matrix.config.os}}
name: Linux_MPI (${{toJson(matrix.config)}})
strategy:
matrix:
include:
- config:
os: ubuntu-20.04
pkgs: ''
- config:
os: ubuntu-20.04
pkgs: 'libboost-all-dev libopencv-dev'
flags: '-DHIGHFIVE_TEST_BOOST:Bool=ON -DHIGHFIVE_TEST_OPENCV:Bool=ON -GNinja'
- config:
os: ubuntu-latest
pkgs: 'libboost-all-dev libeigen3-dev libopencv-dev'
flags: '-DHIGHFIVE_TEST_BOOST:Bool=ON -DHIGHFIVE_TEST_EIGEN:Bool=ON -DHIGHFIVE_TEST_OPENCV:Bool=ON -GNinja'
- config:
os: ubuntu-20.04
pkgs: 'libboost-all-dev'
flags: '-DCMAKE_CXX_STANDARD=17 -DHIGHFIVE_TEST_BOOST:Bool=ON'
- config:
os: ubuntu-22.04
flags: '-DHIGHFIVE_TEST_BOOST=Off -DCMAKE_CXX_STANDARD=20'
steps:
- uses: actions/checkout@v3
with:
submodules: true
- name: "Setup MPI"
uses: mpi4py/setup-mpi@v1
with:
mpi: openmpi
- name: "Install libraries"
run: |
sudo apt-get -qq update
sudo apt-get -qq install libhdf5-openmpi-dev libsz2 ninja-build ${{ matrix.config.pkgs }}
- name: Build
run: |
CMAKE_OPTIONS=(-DHIGHFIVE_PARALLEL_HDF5:BOOL=ON ${{ matrix.config.flags }})
source $GITHUB_WORKSPACE/.github/build.sh
- name: Test
working-directory: ${{github.workspace}}/build
run: |
ctest -j2 --output-on-failure -C $BUILD_TYPE
- name: Test No HDF5 Diagnositics
working-directory: ${{github.workspace}}/build
run: |
! ctest --verbose -C $BUILD_TYPE | grep HDF5-DIAG
# Job testing several versions of hdf5
# ===================================================
Linux_HDF5_Versions:
runs-on: ubuntu-latest
strategy:
matrix:
hdf5_version : [ hdf5-1_8_23, hdf5-1_10_11, hdf5-1_12_3, hdf5_1.14.4.1 ]
steps:
- uses: actions/checkout@v3
with:
submodules: true
- name: "Install libraries"
run: |
sudo apt-get -qq update
sudo apt-get -qq install ninja-build libsz2 zlib1g-dev libboost-all-dev
- name: Build HDF5
run: |
wget https://github.com/HDFGroup/hdf5/archive/refs/tags/${{ matrix.hdf5_version }}.tar.gz --output-document hdf5.tar.gz
tar xf hdf5.tar.gz
mkdir -p hdf5-${{ matrix.hdf5_version }}/BUILD && cd hdf5-${{ matrix.hdf5_version }}/BUILD
cmake .. -DCMAKE_BUILD_TYPE=Release -GNinja -DCMAKE_INSTALL_PREFIX=$HOME/${{ matrix.hdf5_version }} -DHDF5_ENABLE_Z_LIB_SUPPORT=ON -DUSE_LIBAEC=ON -DHDF5_BUILD_EXAMPLES=OFF -DBUILD_STATIC_LIBS=OFF -DBUILD_TESTING=OFF
ninja && ninja install
- name: Build
run: |
CMAKE_OPTIONS=(
-GNinja
-DHDF5_ROOT=$HOME/${{ matrix.hdf5_version }}
)
source $GITHUB_WORKSPACE/.github/build.sh
- name: Test
working-directory: ${{github.workspace}}/build
run: |
ctest -j2 --output-on-failure -C $BUILD_TYPE
- name: Test No HDF5 Diagnositics
working-directory: ${{github.workspace}}/build
run: |
! ctest --verbose -C $BUILD_TYPE | grep HDF5-DIAG
- name: Examples
working-directory: ${{github.workspace}}/build/src/examples
run: $GITHUB_WORKSPACE/.github/run_examples.sh
# Job testing several compilers on a stable Linux
# ====================================================
Linux_Compilers:
runs-on: ubuntu-20.04
strategy:
matrix:
env: [
{CC: clang-10, CXX: clang++-10},
{CC: clang-12, CXX: clang++-12},
{CC: gcc-9, CXX: g++-9},
{CC: gcc-10, CXX: g++-10},
]
steps:
- uses: actions/checkout@v3
with:
submodules: true
- name: "Install libraries"
run: |
sudo apt-get -qq update
sudo apt-get -qq install libboost-all-dev libhdf5-dev libsz2 ninja-build
- name: Build
env: ${{matrix.env}}
run: |
CMAKE_OPTIONS=(-DHIGHFIVE_TEST_BOOST=ON -GNinja)
source $GITHUB_WORKSPACE/.github/build.sh
- name: Test
working-directory: ${{github.workspace}}/build
run: |
ctest -j2 --output-on-failure -C $BUILD_TYPE
- name: Test No HDF5 Diagnositics
working-directory: ${{github.workspace}}/build
run: |
! ctest --verbose -C $BUILD_TYPE | grep HDF5-DIAG
- name: Examples
working-directory: ${{github.workspace}}/build/src/examples
run: $GITHUB_WORKSPACE/.github/run_examples.sh
# Job running unit-test with sanitizers
# =====================================
Linux_Sanitizers:
runs-on: ubuntu-20.04
strategy:
matrix:
env: [
{CC: clang-12, CXX: clang++-12, HIGHFIVE_SANITIZER: address},
{CC: clang-12, CXX: clang++-12, HIGHFIVE_SANITIZER: undefined},
{CC: gcc-10, CXX: g++-10, HIGHFIVE_GLIBCXX_ASSERTIONS: On},
]
steps:
- uses: actions/checkout@v3
with:
submodules: true
- name: "Install libraries"
run: |
sudo apt-get -qq update
sudo apt-get -qq install libboost-all-dev libeigen3-dev libhdf5-dev libsz2 ninja-build
- name: Build
env: ${{matrix.env}}
run: |
CMAKE_OPTIONS=(
-GNinja
-DHIGHFIVE_TEST_BOOST:BOOL=ON
-DHIGHFIVE_TEST_EIGEN:BOOL=ON
-DHIGHFIVE_BUILD_DOCS:BOOL=FALSE
-DHIGHFIVE_GLIBCXX_ASSERTIONS=${HIGHFIVE_GLIBCXX_ASSERTIONS:-OFF}
-DHIGHFIVE_SANITIZER=${HIGHFIVE_SANITIZER:-OFF}
)
source $GITHUB_WORKSPACE/.github/build.sh
- name: Test
working-directory: ${{github.workspace}}/build
run: |
ctest -j2 --output-on-failure -C $BUILD_TYPE
- name: Test No HDF5 Diagnositics
working-directory: ${{github.workspace}}/build
run: |
! ctest --verbose -C $BUILD_TYPE | grep HDF5-DIAG
- name: Examples
working-directory: ${{github.workspace}}/build/src/examples
run: $GITHUB_WORKSPACE/.github/run_examples.sh
# Job to check using HighFive from other CMake projects
# =====================================================
CMake_Project:
runs-on: ubuntu-20.04
strategy:
matrix:
parallelism: [ serial, parallel ]
steps:
- uses: actions/checkout@v3
with:
submodules: true
- name: "Update Ubuntu"
run: |
sudo apt-get -qq update
- name: "Install common libraries"
run: |
sudo apt-get -qq install libboost-all-dev libsz2 ninja-build
- name: "Install serial HDF5"
if: matrix.parallelism == 'serial'
run: |
sudo apt-get -qq install libhdf5-dev
- name: "Install parallel HDF5"
if: matrix.parallelism == 'parallel'
run: |
sudo apt-get -qq install libhdf5-openmpi-dev
- name: "CMake Project Integration"
run: bash tests/cmake_integration/test_cmake_integration.sh
# Job checking the benchmarks work
# ================================
Benchmarks:
runs-on: ubuntu-20.04
steps:
- uses: actions/checkout@v3
with:
submodules: true
- name: "Install libraries"
run: |
sudo apt -y update
sudo apt -y install --no-install-recommends libhdf5-dev pkg-config
- name: "Build benchmarks"
working-directory: ${{github.workspace}}/src/benchmarks
run: make
- run: time ${{github.workspace}}/src/benchmarks/highfive_bench
# Job testing in OSX
# ==================
OSX:
runs-on: ${{matrix.os}}
strategy:
matrix:
os: [ "macOS-12" ]
cxxstd: ["14", "17", "20"]
steps:
- uses: actions/checkout@v3
with:
submodules: true
- name: "Install libraries (OSX)"
run: brew install boost eigen hdf5 ninja xtensor
- name: Build
run: |
CMAKE_OPTIONS=(
-GNinja
-DHIGHFIVE_TEST_BOOST:BOOL=ON
-DHIGHFIVE_TEST_EIGEN:BOOL=ON
-DHIGHFIVE_TEST_XTENSOR:BOOL=ON
-DHIGHFIVE_BUILD_DOCS:BOOL=FALSE
-DHIGHFIVE_TEST_SINGLE_INCLUDES=ON
-DCMAKE_CXX_FLAGS="-coverage -O0"
-DCMAKE_CXX_STANDARD=${{matrix.cxxstd}}
)
source $GITHUB_WORKSPACE/.github/build.sh
- name: Test
working-directory: ${{github.workspace}}/build
run: |
ctest -j2 --output-on-failure -C $BUILD_TYPE
- name: Test No HDF5 Diagnositics
working-directory: ${{github.workspace}}/build
run: |
! ctest --verbose -C $BUILD_TYPE | grep HDF5-DIAG
- name: Examples
working-directory: ${{github.workspace}}/build/src/examples
run: $GITHUB_WORKSPACE/.github/run_examples.sh
# Job testing in Windows
# ======================
Windows:
runs-on: ${{matrix.os}}
strategy:
matrix:
os: [ "windows-2022"]
vs-toolset: [ "v141", "v143" ]
cxxstd: ["14", "17", "20"]
include:
- os: "windows-2019"
vs-toolset: "v142"
cxxstd: "14"
- os: "windows-2019"
vs-toolset: "v142"
cxxstd: "17"
steps:
- uses: actions/checkout@v3
with:
submodules: true
- uses: mamba-org/setup-micromamba@v1
with:
environment-file: doc/environment.yaml
environment-name: win-test
- name: Build
shell: bash -l {0}
run: |
CMAKE_OPTIONS=(
-T ${{matrix.vs-toolset}}
-DCMAKE_CXX_STANDARD=${{matrix.cxxstd}}
-DHIGHFIVE_UNIT_TESTS=ON
-DHIGHFIVE_TEST_BOOST:BOOL=ON
-DHIGHFIVE_TEST_EIGEN:BOOL=ON
-DHIGHFIVE_TEST_XTENSOR:BOOL=ON
-DHIGHFIVE_TEST_SINGLE_INCLUDES=ON
)
source $GITHUB_WORKSPACE/.github/build.sh
- name: Test
working-directory: ${{github.workspace}}/build
shell: bash -l {0}
run: |
ctest -j2 --output-on-failure -C $BUILD_TYPE
- name: Test No HDF5 Diagnositics
working-directory: ${{github.workspace}}/build
shell: bash -l {0}
run: |
! ctest --verbose -C $BUILD_TYPE | grep HDF5-DIAG