add get_fill_value Variable method and fill_value='default' option #621
Workflow file for this run
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| name: Build and Test Linux with latest netcdf-c | |
| on: [push, pull_request] | |
| jobs: | |
| build-linux: | |
| name: Python (${{ matrix.python-version }}) | |
| runs-on: ubuntu-latest | |
| env: | |
| PNETCDF_VERSION: 1.12.1 | |
| NETCDF_VERSION: 4.9.2 | |
| NETCDF_DIR: ${{ github.workspace }}/.. | |
| NETCDF_EXTRA_CONFIG: --enable-pnetcdf | |
| 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 PnetCDF version ${PNETCDF_VERSION}" | |
| wget https://parallel-netcdf.github.io/Release/pnetcdf-${PNETCDF_VERSION}.tar.gz | |
| tar -xzf pnetcdf-${PNETCDF_VERSION}.tar.gz | |
| pushd pnetcdf-${PNETCDF_VERSION} | |
| ./configure --prefix $NETCDF_DIR --enable-shared --disable-fortran --disable-cxx | |
| make -j 2 | |
| sudo make install | |
| popd | |
| echo "Download and build netCDF version ${NETCDF_VERSION}" | |
| wget https://downloads.unidata.ucar.edu/netcdf-c/${NETCDF_VERSION}/netcdf-c-${NETCDF_VERSION}.tar.gz | |
| tar -xzf netcdf-c-${NETCDF_VERSION}.tar.gz | |
| pushd netcdf-c-${NETCDF_VERSION} | |
| export CPPFLAGS="-I/usr/include/hdf5/mpich -I${NETCDF_DIR}/include" | |
| export LDFLAGS="-L${NETCDF_DIR}/lib" | |
| export LIBS="-lhdf5_mpich_hl -lhdf5_mpich -lm -lz" | |
| ./configure --prefix $NETCDF_DIR --enable-netcdf-4 --enable-shared --enable-dap --enable-parallel4 $NETCDF_EXTRA_CONFIG | |
| make -j 2 | |
| sudo 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 | |
| - name: Install netcdf4-python | |
| run: | | |
| export PATH=${NETCDF_DIR}/bin:${PATH} | |
| export NETCDF_PLUGIN_DIR=${{ github.workspace }}/netcdf-c-${NETCDF_VERSION}/plugins/plugindir | |
| python setup.py install | |
| - name: Test | |
| run: | | |
| export PATH=${NETCDF_DIR}/bin:${PATH} | |
| python checkversion.py | |
| # serial | |
| cd test | |
| python run_all.py | |
| # parallel (hdf5 for netcdf4, pnetcdf for netcdf3) | |
| 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 | |
| mpirun.mpich -np 4 python mpi_example.py NETCDF3_64BIT_DATA | |
| if [ $? -ne 0 ] ; then | |
| echo "pnetcdf mpi test failed!" | |
| exit 1 | |
| else | |
| echo "pnetcdf mpi test passed!" | |
| fi | |
| # - name: Tarball | |
| # run: | | |
| # export PATH=${NETCDF_DIR}/bin:${PATH} | |
| # python setup.py --version | |
| # check-manifest --version | |
| # check-manifest --verbose | |
| # pip wheel . -w dist --no-deps | |
| # twine check dist/* |