Fix random "only endian='native' allowed for NETCDF3 files" error #910
Workflow file for this run
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| name: Build and Test on Linux with netcdf-c github master | |
| on: [push, pull_request] | |
| jobs: | |
| build-linux: | |
| name: Python (${{ matrix.python-version }}) | |
| runs-on: ubuntu-latest | |
| env: | |
| NETCDF_DIR: ${{ github.workspace }}/.. | |
| CC: mpicc.mpich | |
| #NO_NET: 1 | |
| strategy: | |
| matrix: | |
| python-version: ["3.11"] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| submodules: true | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install Ubuntu Dependencies | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install mpich libmpich-dev libhdf5-mpich-dev libcurl4-openssl-dev bzip2 libsnappy-dev libblosc-dev libzstd-dev | |
| echo "Download and build netCDF github master" | |
| git clone https://github.com/Unidata/netcdf-c | |
| pushd netcdf-c | |
| export CPPFLAGS="-I/usr/include/hdf5/mpich -I${NETCDF_DIR}/include" | |
| export LDFLAGS="-L${NETCDF_DIR}/lib" | |
| export LIBS="-lhdf5_mpich_hl -lhdf5_mpich -lm -lz" | |
| autoreconf -i | |
| ./configure --prefix $NETCDF_DIR --enable-netcdf-4 --enable-shared --enable-dap --enable-parallel4 | |
| make -j 2 | |
| make install | |
| popd | |
| # - name: The job has failed | |
| # if: ${{ failure() }} | |
| # run: | | |
| # cd netcdf-c-${NETCDF_VERSION} | |
| # cat config.log | |
| - name: Install python dependencies via pip | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install numpy cython cftime pytest twine wheel check-manifest mpi4py mypy types-setuptools | |
| - name: Install netcdf4-python | |
| run: | | |
| export PATH=${NETCDF_DIR}/bin:${PATH} | |
| export NETCDF_PLUGIN_DIR=${{ github.workspace }}/netcdf-c/plugins/plugindir | |
| python setup.py install | |
| - name: Test | |
| run: | | |
| export PATH=${NETCDF_DIR}/bin:${PATH} | |
| #export HDF5_PLUGIN_PATH=${NETCDF_DIR}/plugins/plugindir | |
| python checkversion.py | |
| # serial | |
| cd test | |
| python run_all.py | |
| # parallel | |
| cd ../examples | |
| mpirun.mpich -np 4 python mpi_example.py | |
| if [ $? -ne 0 ] ; then | |
| echo "hdf5 mpi test failed!" | |
| exit 1 | |
| else | |
| echo "hdf5 mpi test passed!" | |
| fi | |
| mpirun.mpich -np 4 python mpi_example_compressed.py | |
| if [ $? -ne 0 ] ; then | |
| echo "hdf5 compressed mpi test failed!" | |
| exit 1 | |
| else | |
| echo "hdf5 compressed mpi test passed!" | |
| fi | |
| - name: Stubtest | |
| run: | | |
| stubtest netCDF4 --allowlist .github/stubtest-allowlist --mypy-config-file=pyproject.toml | |
| mypy test | |
| mypy examples |