Read + Write Zarr with consolidated metadata #1502
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| ### | |
| # Build hdf5 dependencies and cache them in a combined directory. | |
| ### | |
| name: Run Ubuntu/Linux netCDF Tests | |
| on: [pull_request,workflow_dispatch] | |
| env: | |
| REMOTETESTDOWN: ${{ vars.REMOTETESTDOWN }} | |
| concurrency: | |
| group: ${{ github.workflow}}-${{ github.head_ref }} | |
| cancel-in-progress: true | |
| jobs: | |
| build-deps-serial: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| hdf5: [ 1.10.8, 1.12.2, 1.14.3 ] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install System dependencies | |
| shell: bash -l {0} | |
| run: sudo apt update && sudo apt install -y libaec-dev zlib1g-dev automake autoconf libcurl4-openssl-dev libjpeg-dev wget curl bzip2 m4 flex bison cmake libzip-dev doxygen openssl | |
| ### | |
| # Installing libhdf5 | |
| ### | |
| - name: Cache libhdf5-${{ matrix.hdf5 }} | |
| id: cache-hdf5 | |
| uses: actions/cache@v4 | |
| with: | |
| path: ~/environments/${{ matrix.hdf5 }} | |
| key: hdf5-${{ runner.os }}-${{ matrix.hdf5 }} | |
| - name: Build libhdf5-${{ matrix.hdf5 }} | |
| if: steps.cache-hdf5.outputs.cache-hit != 'true' | |
| run: | | |
| set -x | |
| wget https://support.hdfgroup.org/ftp/HDF/releases/HDF4.2.15/src/hdf-4.2.15.tar.bz2 | |
| tar -jxf hdf-4.2.15.tar.bz2 | |
| pushd hdf-4.2.15 | |
| ./configure --prefix=${HOME}/environments/${{ matrix.hdf5 }} --disable-static --enable-shared --disable-fortran --disable-netcdf --with-szlib --enable-hdf4-xdr | |
| make -j | |
| make install -j | |
| popd | |
| wget https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-$(echo ${{ matrix.hdf5 }} | cut -d. -f 1,2)/hdf5-${{ matrix.hdf5 }}/src/hdf5-${{ matrix.hdf5 }}.tar.bz2 | |
| tar -jxf hdf5-${{ matrix.hdf5 }}.tar.bz2 | |
| pushd hdf5-${{ matrix.hdf5 }} | |
| ./configure --disable-static --enable-shared --prefix=${HOME}/environments/${{ matrix.hdf5 }} --enable-hl --with-szlib | |
| make -j | |
| make install -j | |
| popd | |
| build-deps-parallel: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| hdf5: [ 1.14.3 ] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install System dependencies | |
| shell: bash -l {0} | |
| run: sudo apt update && sudo apt install -y libaec-dev zlib1g-dev automake autoconf libcurl4-openssl-dev libjpeg-dev wget curl bzip2 m4 flex bison cmake libzip-dev mpich libmpich-dev | |
| ### | |
| # Installing libhdf5 | |
| ### | |
| - name: Cache libhdf5-parallel-${{ matrix.hdf5 }} | |
| id: cache-hdf5 | |
| uses: actions/cache@v4 | |
| with: | |
| path: ~/environments/${{ matrix.hdf5 }} | |
| key: hdf5-parallel-${{ runner.os }}-${{ matrix.hdf5 }} | |
| - name: Build libhdf5-${{ matrix.hdf5 }}-pnetcdf-1.12.3 | |
| if: steps.cache-hdf5.outputs.cache-hit != 'true' | |
| run: | | |
| set -x | |
| wget https://support.hdfgroup.org/ftp/HDF/releases/HDF4.2.15/src/hdf-4.2.15.tar.bz2 | |
| tar -jxf hdf-4.2.15.tar.bz2 | |
| pushd hdf-4.2.15 | |
| CC=mpicc ./configure --prefix=${HOME}/environments/${{ matrix.hdf5 }} --disable-static --enable-shared --disable-fortran --disable-netcdf --with-szlib --enable-parallel --enable-hdf4-xdr | |
| make -j | |
| make install -j | |
| popd | |
| wget https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-$(echo ${{ matrix.hdf5 }} | cut -d. -f 1,2)/hdf5-${{ matrix.hdf5 }}/src/hdf5-${{ matrix.hdf5 }}.tar.bz2 | |
| tar -jxf hdf5-${{ matrix.hdf5 }}.tar.bz2 | |
| pushd hdf5-${{ matrix.hdf5 }} | |
| CC=mpicc ./configure --disable-static --enable-shared --prefix=${HOME}/environments/${{ matrix.hdf5 }} --enable-hl --with-szlib --enable-parallel | |
| make -j | |
| make install -j | |
| popd | |
| wget https://parallel-netcdf.github.io/Release/pnetcdf-1.12.3.tar.gz | |
| tar -zxf pnetcdf-1.12.3.tar.gz | |
| pushd pnetcdf-1.12.3 | |
| CC=mpicc ./configure --disable-static --enable-shared --prefix=${HOME}/environments/${{ matrix.hdf5 }} | |
| make -j | |
| make install -j | |
| popd | |
| ##### | |
| # One-Off Autotools-based tests. | |
| ##### | |
| ## | |
| # Serial, Shared | |
| ## | |
| nc-ac-tests-oneoff-serial-shared: | |
| needs: build-deps-serial | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| hdf5: [ 1.14.3 ] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install System dependencies | |
| shell: bash -l {0} | |
| run: sudo apt update && sudo apt install -y libaec-dev zlib1g-dev automake autoconf libcurl4-openssl-dev libjpeg-dev wget curl bzip2 m4 flex bison cmake libzip-dev doxygen valgrind | |
| ### | |
| # Set Environmental Variables | |
| ### | |
| - run: echo "CFLAGS=-I${HOME}/environments/${{ matrix.hdf5 }}/include" >> $GITHUB_ENV | |
| - run: echo "LDFLAGS=-L${HOME}/environments/${{ matrix.hdf5 }}/lib" >> $GITHUB_ENV | |
| - run: echo "LD_LIBRARY_PATH=${HOME}/environments/${{ matrix.hdf5 }}/lib" >> $GITHUB_ENV | |
| ### | |
| # Fetch Cache | |
| ### | |
| - name: Fetch HDF Cache | |
| id: cache-hdf | |
| uses: actions/cache@v4 | |
| with: | |
| path: ~/environments/${{ matrix.hdf5 }} | |
| key: hdf5-${{ runner.os }}-${{ matrix.hdf5 }} | |
| - name: Check Cache | |
| shell: bash -l {0} | |
| run: ls ${HOME}/environments && ls ${HOME}/environments/${{ matrix.hdf5 }} && ls ${HOME}/environments/${{ matrix.hdf5}}/lib | |
| ### | |
| # Configure and build | |
| ### | |
| - name: Run autoconf | |
| shell: bash -l {0} | |
| run: autoreconf -if | |
| - name: Configure | |
| shell: bash -l {0} | |
| run: CFLAGS=${CFLAGS} LDFLAGS=${LDFLAGS} LD_LIBRARY_PATH=${LD_LIBRARY_PATH} ./configure --enable-hdf5 --enable-dap --disable-dap-remote-tests --enable-doxygen --enable-external-server-tests --disable-libxml2 | |
| if: ${{ success() }} | |
| - name: Look at config.log if error | |
| shell: bash -l {0} | |
| run: cat config.log | |
| if: ${{ failure() }} | |
| - name: Print Summary | |
| shell: bash -l {0} | |
| run: cat libnetcdf.settings | |
| - name: Build Library and Utilities | |
| shell: bash -l {0} | |
| run: CFLAGS=${CFLAGS} LDFLAGS=${LDFLAGS} LD_LIBRARY_PATH=${LD_LIBRARY_PATH} make -j | |
| if: ${{ success() }} | |
| - name: Build Tests | |
| shell: bash -l {0} | |
| run: CFLAGS=${CFLAGS} LDFLAGS=${LDFLAGS} LD_LIBRARY_PATH=${LD_LIBRARY_PATH} make check TESTS="" -j | |
| if: ${{ success() }} | |
| - name: Run Tests | |
| shell: bash -l {0} | |
| run: | | |
| LD_LIBRARY_PATH="/home/runner/work/netcdf-c/netcdf-c/liblib/.libs:${LD_LIBRARY_PATH}" | |
| CFLAGS=${CFLAGS} LDFLAGS=${LDFLAGS} LD_LIBRARY_PATH=${LD_LIBRARY_PATH} make check -j | |
| if: ${{ success() }} | |
| - name: Create source distribution | |
| shell: bash -l {0} | |
| if: ${{ success() }} | |
| run: make dist -j | |
| - uses: actions/upload-artifact@v3 | |
| with: | |
| name: netcdf-c-autotools-source-distribution | |
| path: | | |
| *.tar* | |
| *.zip | |
| *.tgz | |
| ## | |
| # | |
| ## Serial, Static | |
| nc-ac-tests-oneoff-serial-static: | |
| needs: build-deps-serial | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| hdf5: [ 1.14.3 ] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install System dependencies | |
| shell: bash -l {0} | |
| run: sudo apt update && sudo apt install -y libaec-dev zlib1g-dev automake autoconf libcurl4-openssl-dev libjpeg-dev wget curl bzip2 m4 flex bison cmake libzip-dev doxygen valgrind | |
| ### | |
| # Set Environmental Variables | |
| ### | |
| - run: echo "CFLAGS=-I${HOME}/environments/${{ matrix.hdf5 }}/include" >> $GITHUB_ENV | |
| - run: echo "LDFLAGS=-L${HOME}/environments/${{ matrix.hdf5 }}/lib" >> $GITHUB_ENV | |
| - run: echo "LD_LIBRARY_PATH=${HOME}/environments/${{ matrix.hdf5 }}/lib" >> $GITHUB_ENV | |
| ### | |
| # Fetch Cache | |
| ### | |
| - name: Fetch HDF Cache | |
| id: cache-hdf | |
| uses: actions/cache@v4 | |
| with: | |
| path: ~/environments/${{ matrix.hdf5 }} | |
| key: hdf5-${{ runner.os }}-${{ matrix.hdf5 }} | |
| - name: Check Cache | |
| shell: bash -l {0} | |
| run: ls ${HOME}/environments && ls ${HOME}/environments/${{ matrix.hdf5 }} && ls ${HOME}/environments/${{ matrix.hdf5}}/lib | |
| ### | |
| # Configure and build | |
| ### | |
| - name: Run autoconf | |
| shell: bash -l {0} | |
| run: autoreconf -if | |
| - name: Configure | |
| shell: bash -l {0} | |
| run: CFLAGS=${CFLAGS} LDFLAGS=${LDFLAGS} LD_LIBRARY_PATH=${LD_LIBRARY_PATH} ./configure --enable-hdf5 --enable-dap --disable-dap-remote-tests --enable-doxygen --enable-external-server-tests --disable-libxml2 --disable-shared --enable-static | |
| if: ${{ success() }} | |
| - name: Look at config.log if error | |
| shell: bash -l {0} | |
| run: cat config.log | |
| if: ${{ failure() }} | |
| - name: Print Summary | |
| shell: bash -l {0} | |
| run: cat libnetcdf.settings | |
| - name: Build Library and Utilities | |
| shell: bash -l {0} | |
| run: CFLAGS=${CFLAGS} LDFLAGS=${LDFLAGS} LD_LIBRARY_PATH=${LD_LIBRARY_PATH} make -j | |
| if: ${{ success() }} | |
| - name: Build Tests | |
| shell: bash -l {0} | |
| run: CFLAGS=${CFLAGS} LDFLAGS=${LDFLAGS} LD_LIBRARY_PATH=${LD_LIBRARY_PATH} make check TESTS="" -j | |
| if: ${{ success() }} | |
| - name: Run Tests | |
| shell: bash -l {0} | |
| run: | | |
| LD_LIBRARY_PATH="/home/runner/work/netcdf-c/netcdf-c/liblib/.libs:${LD_LIBRARY_PATH}" | |
| CFLAGS=${CFLAGS} LDFLAGS=${LDFLAGS} LD_LIBRARY_PATH=${LD_LIBRARY_PATH} make check -j | |
| if: ${{ success() }} | |
| - name: Create source distribution | |
| shell: bash -l {0} | |
| if: ${{ success() }} | |
| run: make dist -j | |
| - uses: actions/upload-artifact@v3 | |
| with: | |
| name: netcdf-c-autotools-source-distribution | |
| path: | | |
| *.tar* | |
| *.zip | |
| *.tgz | |
| ## | |
| # Parallel | |
| ## | |
| nc-ac-tests-oneoff-parallel: | |
| needs: build-deps-parallel | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| hdf5: [ 1.14.3 ] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install System dependencies | |
| shell: bash -l {0} | |
| run: sudo apt update && sudo apt install -y libaec-dev zlib1g-dev automake autoconf libcurl4-openssl-dev libjpeg-dev wget curl bzip2 m4 flex bison cmake libzip-dev mpich libmpich-dev | |
| ### | |
| # Set Environmental Variables | |
| ### | |
| - run: echo "CFLAGS=-I${HOME}/environments/${{ matrix.hdf5 }}/include" >> $GITHUB_ENV | |
| - run: echo "LDFLAGS=-L${HOME}/environments/${{ matrix.hdf5 }}/lib" >> $GITHUB_ENV | |
| - run: echo "LD_LIBRARY_PATH=${HOME}/environments/${{ matrix.hdf5 }}/lib" >> $GITHUB_ENV | |
| - name: Fetch HDF Cache | |
| id: cache-hdf | |
| uses: actions/cache@v4 | |
| with: | |
| path: ~/environments/${{ matrix.hdf5 }} | |
| key: hdf5-parallel-${{ runner.os }}-${{ matrix.hdf5 }} | |
| - name: Check Cache | |
| shell: bash -l {0} | |
| run: ls ${HOME}/environments && ls ${HOME}/environments/${{ matrix.hdf5 }} && ls ${HOME}/environments/${{ matrix.hdf5}}/lib | |
| ### | |
| # Configure and build | |
| ### | |
| - name: Run autoconf | |
| shell: bash -l {0} | |
| run: autoreconf -if | |
| - name: Configure | |
| shell: bash -l {0} | |
| run: CFLAGS=${CFLAGS} LDFLAGS=${LDFLAGS} LD_LIBRARY_PATH=${LD_LIBRARY_PATH} CC=mpicc ./configure --enable-hdf5 --enable-dap --disable-dap-remote-tests --enable-parallel-tests --enable-pnetcdf | |
| if: ${{ success() }} | |
| - name: Look at config.log if error | |
| shell: bash -l {0} | |
| run: cat config.log | |
| if: ${{ failure() }} | |
| - name: Print Summary | |
| shell: bash -l {0} | |
| run: cat libnetcdf.settings | |
| - name: Build Library and Utilities | |
| shell: bash -l {0} | |
| run: CFLAGS=${CFLAGS} LDFLAGS=${LDFLAGS} LD_LIBRARY_PATH=${LD_LIBRARY_PATH} CC=mpicc make -j | |
| if: ${{ success() }} | |
| - name: Build Tests | |
| shell: bash -l {0} | |
| run: CFLAGS=${CFLAGS} LDFLAGS=${LDFLAGS} LD_LIBRARY_PATH=${LD_LIBRARY_PATH} CC=mpicc make check TESTS="" -j | |
| if: ${{ success() }} | |
| - name: Run Tests | |
| shell: bash -l {0} | |
| run: CFLAGS=${CFLAGS} LDFLAGS=${LDFLAGS} LD_LIBRARY_PATH=${LD_LIBRARY_PATH} CC=mpicc make check -j | |
| if: ${{ success() }} | |
| ##### | |
| # One-Off CMake-based tests. | |
| ##### | |
| ## | |
| # Serial, Shared | |
| ## | |
| nc-cmake-tests-oneoff-serial-shared: | |
| needs: build-deps-serial | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| hdf5: [ 1.14.3 ] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install System dependencies | |
| shell: bash -l {0} | |
| run: sudo apt update && sudo apt install -y libaec-dev zlib1g-dev automake autoconf libcurl4-openssl-dev libjpeg-dev wget curl bzip2 m4 flex bison cmake libzip-dev doxygen | |
| ### | |
| # Set Environmental Variables | |
| ### | |
| - run: echo "CMAKE_PREFIX_PATH=${HOME}/environments/${{ matrix.hdf5 }}/" >> $GITHUB_ENV | |
| - run: echo "LD_LIBRARY_PATH=${HOME}/environments/${{ matrix.hdf5 }}/lib" >> $GITHUB_ENV | |
| ### | |
| # Fetch Cache | |
| ### | |
| - name: Fetch HDF Cache | |
| id: cache-hdf5 | |
| uses: actions/cache@v4 | |
| with: | |
| path: ~/environments/${{ matrix.hdf5 }} | |
| key: hdf5-${{ runner.os }}-${{ matrix.hdf5 }} | |
| - name: Check Cache | |
| shell: bash -l {0} | |
| run: ls ${HOME}/environments && ls ${HOME}/environments/${{ matrix.hdf5 }} && ls ${HOME}/environments/${{ matrix.hdf5}}/lib | |
| ### | |
| # Configure and build | |
| ### | |
| - name: Perform out-of-directory build | |
| shell: bash -l {0} | |
| run: | | |
| mkdir build | |
| cd build | |
| LD_LIBRARY_PATH=${LD_LIBRARY_PATH} cmake .. -DCMAKE_PREFIX_PATH=${CMAKE_PREFIX_PATH} -DNETCDF_ENABLE_DAP=TRUE -DNETCDF_ENABLE_HDF5=TRUE -DNETCDF_ENABLE_NCZARR=TRUE -DNETCDF_ENABLE_DAP_LONG_TESTS=TRUE -DNETCDF_ENABLE_LIBXML2=FALSE | |
| - name: Print Summary | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| cat libnetcdf.settings | |
| - name: Build All | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| LD_LIBRARY_PATH=${LD_LIBRARY_PATH} make -j 12 | |
| if: ${{ success() }} | |
| - name: Run Tests | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| LD_LIBRARY_PATH=${LD_LIBRARY_PATH} ctest --output-on-failure -j 12 . | |
| if: ${{ success() }} | |
| - name: Verbose Output if CTest Failure | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| LD_LIBRARY_PATH=${LD_LIBRARY_PATH} ctest -j 12 --rerun-failed --output-on-failure -VV | |
| if: ${{ failure() }} | |
| ## | |
| # Serial, Shared | |
| ## | |
| nc-cmake-tests-oneoff-serial-static: | |
| needs: build-deps-serial | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| hdf5: [ 1.14.3 ] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install System dependencies | |
| shell: bash -l {0} | |
| run: sudo apt update && sudo apt install -y libaec-dev zlib1g-dev automake autoconf libcurl4-openssl-dev libjpeg-dev wget curl bzip2 m4 flex bison cmake libzip-dev doxygen | |
| ### | |
| # Set Environmental Variables | |
| ### | |
| - run: echo "CMAKE_PREFIX_PATH=${HOME}/environments/${{ matrix.hdf5 }}/" >> $GITHUB_ENV | |
| - run: echo "LD_LIBRARY_PATH=${HOME}/environments/${{ matrix.hdf5 }}/lib" >> $GITHUB_ENV | |
| - run: echo "CMAKE_C_FLAGS=-fPIC" >> $GITHUB_ENV | |
| ### | |
| # Fetch Cache | |
| ### | |
| - name: Fetch HDF Cache | |
| id: cache-hdf5 | |
| uses: actions/cache@v4 | |
| with: | |
| path: ~/environments/${{ matrix.hdf5 }} | |
| key: hdf5-${{ runner.os }}-${{ matrix.hdf5 }} | |
| - name: Check Cache | |
| shell: bash -l {0} | |
| run: ls ${HOME}/environments && ls ${HOME}/environments/${{ matrix.hdf5 }} && ls ${HOME}/environments/${{ matrix.hdf5}}/lib | |
| ### | |
| # Configure and build | |
| ### | |
| - name: Perform out-of-directory build | |
| shell: bash -l {0} | |
| run: | | |
| mkdir build | |
| cd build | |
| LD_LIBRARY_PATH=${LD_LIBRARY_PATH} cmake .. -DCMAKE_PREFIX_PATH=${CMAKE_PREFIX_PATH} -DNETCDF_ENABLE_DAP=TRUE -DNETCDF_ENABLE_HDF5=TRUE -DNETCDF_ENABLE_NCZARR=TRUE -DNETCDF_ENABLE_DAP_LONG_TESTS=TRUE -DNETCDF_ENABLE_LIBXML2=FALSE -DBUILD_SHARED_LIBS=FALSE -DCMAKE_C_FLAGS=${CMAKE_C_FLAGS} | |
| - name: Print Summary | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| cat libnetcdf.settings | |
| - name: Build All | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| LD_LIBRARY_PATH=${LD_LIBRARY_PATH} make -j 12 | |
| if: ${{ success() }} | |
| - name: Run Tests | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| LD_LIBRARY_PATH=${LD_LIBRARY_PATH} ctest --output-on-failure -j 12 . | |
| if: ${{ success() }} | |
| - name: Verbose Output if CTest Failure | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| LD_LIBRARY_PATH=${LD_LIBRARY_PATH} ctest -j 12 --rerun-failed --output-on-failure -VV | |
| if: ${{ failure() }} | |
| ## | |
| # Parallel | |
| ## | |
| nc-cmake-tests-oneoff-parallel: | |
| needs: build-deps-parallel | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| hdf5: [ 1.14.3 ] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install System dependencies | |
| shell: bash -l {0} | |
| run: sudo apt update && sudo apt install -y libaec-dev zlib1g-dev automake autoconf libcurl4-openssl-dev libjpeg-dev wget curl bzip2 m4 flex bison cmake libzip-dev doxygen mpich libmpich-dev | |
| ### | |
| # Set Environmental Variables | |
| ### | |
| - run: echo "CMAKE_PREFIX_PATH=${HOME}/environments/${{ matrix.hdf5 }}/" >> $GITHUB_ENV | |
| - run: echo "LD_LIBRARY_PATH=${HOME}/environments/${{ matrix.hdf5 }}/lib" >> $GITHUB_ENV | |
| ### | |
| # Fetch Cache | |
| ### | |
| - name: Fetch HDF Cache | |
| id: cache-hdf5 | |
| uses: actions/cache@v4 | |
| with: | |
| path: ~/environments/${{ matrix.hdf5 }} | |
| key: hdf5-parallel-${{ runner.os }}-${{ matrix.hdf5 }} | |
| - name: Check Cache | |
| shell: bash -l {0} | |
| run: ls ${HOME}/environments && ls ${HOME}/environments/${{ matrix.hdf5 }} && ls ${HOME}/environments/${{ matrix.hdf5}}/lib | |
| ### | |
| # Configure and build | |
| ### | |
| - name: Perform out-of-directory build | |
| shell: bash -l {0} | |
| run: | | |
| mkdir build | |
| cd build | |
| LD_LIBRARY_PATH=${LD_LIBRARY_PATH} cmake .. -DCMAKE_C_COMPILER=mpicc -DCMAKE_PREFIX_PATH=${CMAKE_PREFIX_PATH} -DNETCDF_ENABLE_DAP=TRUE -DNETCDF_ENABLE_HDF5=TRUE -DNETCDF_ENABLE_NCZARR=TRUE -D NETCDF_ENABLE_DAP_LONG_TESTS=TRUE -DNETCDF_ENABLE_PNETCDF=TRUE | |
| - name: Print Summary | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| cat libnetcdf.settings | |
| - name: Build All | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| LD_LIBRARY_PATH=${LD_LIBRARY_PATH} make -j 12 | |
| if: ${{ success() }} | |
| - name: Run Tests | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| LD_LIBRARY_PATH=${LD_LIBRARY_PATH} ctest --output-on-failure -j 12 . | |
| if: ${{ success() }} | |
| - name: Verbose Output if CTest Failure | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| LD_LIBRARY_PATH=${LD_LIBRARY_PATH} ctest -j 12 --rerun-failed --output-on-failure -VV | |
| if: ${{ failure() }} | |
| nc-autotools: | |
| needs: [ nc-cmake-tests-oneoff-serial-shared, nc-cmake-tests-oneoff-serial-static, nc-ac-tests-oneoff-serial-shared, nc-ac-tests-oneoff-serial-static, nc-cmake-tests-oneoff-parallel, nc-ac-tests-oneoff-parallel ] | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| hdf5: [1.10.8, 1.12.2, 1.14.3 ] | |
| use_nc4: [ nc3, nc4 ] | |
| use_dap: [ dap_off, dap_on ] | |
| use_nczarr: [ nczarr_off, nczarr_on ] | |
| steps: | |
| - uses: actions/download-artifact@v3 | |
| with: | |
| name: netcdf-c-autotools-source-distribution | |
| - name: Unpack source distribution | |
| shell: bash -l {0} | |
| run: | | |
| if [ -f *.zip ]; | |
| then | |
| unzip *.zip | |
| else | |
| tar xvzf $(ls *.tar* *.tgz *.zip | head -1) | |
| fi | |
| ls -d netcdf-c* | |
| for name in netcdf-c*; | |
| do | |
| if [ -d ${name} ]; | |
| then | |
| cd ${name} | |
| break | |
| fi | |
| done | |
| - name: Install System dependencies | |
| shell: bash -l {0} | |
| run: sudo apt update && sudo apt install -y libaec-dev zlib1g-dev automake autoconf libcurl4-openssl-dev libjpeg-dev wget curl bzip2 m4 flex bison cmake libzip-dev | |
| ### | |
| # Set Environmental Variables | |
| ### | |
| - run: echo "CFLAGS=-I${HOME}/environments/${{ matrix.hdf5 }}/include" >> $GITHUB_ENV | |
| - run: echo "LDFLAGS=-L${HOME}/environments/${{ matrix.hdf5 }}/lib" >> $GITHUB_ENV | |
| - run: echo "LD_LIBRARY_PATH=${HOME}/environments/${{ matrix.hdf5 }}/lib" >> $GITHUB_ENV | |
| - run: | | |
| echo "NETCDF_ENABLE_HDF5=--disable-hdf5" >> $GITHUB_ENV | |
| if: matrix.use_nc4 == 'nc3' | |
| - run: | | |
| echo "NETCDF_ENABLE_HDF5=--enable-hdf5" >> $GITHUB_ENV | |
| if: matrix.use_nc4 == 'nc4' | |
| - run: echo "NETCDF_ENABLE_DAP=--disable-dap" >> $GITHUB_ENV | |
| if: matrix.use_dap == 'dap_off' | |
| - run: echo "NETCDF_ENABLE_DAP=--enable-dap" >> $GITHUB_ENV | |
| if: matrix.use_dap == 'dap_on' | |
| - run: echo "NETCDF_ENABLE_NCZARR=--disable-nczarr" >> $GITHUB_ENV | |
| if: matrix.use_nczarr == 'nczarr_off' | |
| - run: echo "NETCDF_ENABLE_NCZARR=--enable-nczarr" >> $GITHUB_ENV | |
| if: matrix.use_nczarr == 'nczarr_on' | |
| ### | |
| # Fetch Cache | |
| ### | |
| - name: Fetch HDF Cache | |
| id: cache-hdf | |
| uses: actions/cache@v4 | |
| with: | |
| path: ~/environments/${{ matrix.hdf5 }} | |
| key: hdf5-${{ runner.os }}-${{ matrix.hdf5 }} | |
| - name: Check Cache | |
| shell: bash -l {0} | |
| run: ls ${HOME}/environments && ls ${HOME}/environments/${{ matrix.hdf5 }} && ls ${HOME}/environments/${{ matrix.hdf5}}/lib | |
| ### | |
| # Configure and build | |
| ### | |
| - name: Run autoconf | |
| shell: bash -l {0} | |
| run: | | |
| for name in netcdf-c*; | |
| do | |
| if [ -d ${name} ]; | |
| then | |
| cd ${name} | |
| break | |
| fi | |
| done | |
| autoreconf -if | |
| - name: Configure | |
| shell: bash -l {0} | |
| run: | | |
| for name in netcdf-c*; | |
| do | |
| if [ -d ${name} ]; | |
| then | |
| cd ${name} | |
| break | |
| fi | |
| done | |
| current_directory="$(pwd)" | |
| mkdir ../build | |
| cd ../build && CFLAGS=${CFLAGS} LDFLAGS=${LDFLAGS} LD_LIBRARY_PATH=${LD_LIBRARY_PATH} "${current_directory}/configure" ${NETCDF_ENABLE_HDF5} ${NETCDF_ENABLE_DAP} ${NETCDF_ENABLE_NCZARR} | |
| if: ${{ success() }} | |
| - name: Look at config.log if error | |
| shell: bash -l {0} | |
| run: | | |
| if [ -d ../build ]; | |
| then | |
| cd ../build | |
| else | |
| cd build | |
| fi && cat config.log | |
| if: ${{ failure() }} | |
| - name: Print Summary | |
| shell: bash -l {0} | |
| run: | | |
| if [ -d ../build ]; | |
| then | |
| cd ../build | |
| else | |
| cd build | |
| fi && cat libnetcdf.settings | |
| - name: Build Library and Utilities | |
| shell: bash -l {0} | |
| run: | | |
| if [ -d ../build ]; | |
| then | |
| cd ../build | |
| else | |
| cd build | |
| fi && CFLAGS=${CFLAGS} LDFLAGS=${LDFLAGS} LD_LIBRARY_PATH=${LD_LIBRARY_PATH} make -j | |
| if: ${{ success() }} | |
| - name: Build Tests | |
| shell: bash -l {0} | |
| run: | | |
| if [ -d ../build ]; | |
| then | |
| cd ../build | |
| else | |
| cd build | |
| fi && CFLAGS=${CFLAGS} LDFLAGS=${LDFLAGS} LD_LIBRARY_PATH=${LD_LIBRARY_PATH} make check TESTS="" -j | |
| if: ${{ success() }} | |
| - name: Run Tests | |
| shell: bash -l {0} | |
| run: | | |
| if [ -d ../build ]; | |
| then | |
| cd ../build | |
| else | |
| cd build | |
| fi && CFLAGS=${CFLAGS} LDFLAGS=${LDFLAGS} LD_LIBRARY_PATH=${LD_LIBRARY_PATH} make check -j | |
| if: ${{ success() }} | |
| nc-cmake: | |
| needs: [ nc-cmake-tests-oneoff-serial-shared, nc-cmake-tests-oneoff-serial-static, nc-ac-tests-oneoff-serial-shared, nc-ac-tests-oneoff-serial-static, nc-cmake-tests-oneoff-parallel, nc-ac-tests-oneoff-parallel ] | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| hdf5: [ 1.10.8, 1.12.2, 1.14.3 ] | |
| use_nc4: [ nc3, nc4 ] | |
| use_dap: [ dap_off, dap_on ] | |
| use_nczarr: [ nczarr_off, nczarr_on ] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install System dependencies | |
| shell: bash -l {0} | |
| run: sudo apt update && sudo apt install -y libaec-dev zlib1g-dev automake autoconf libcurl4-openssl-dev libjpeg-dev wget curl bzip2 m4 flex bison cmake libzip-dev | |
| ### | |
| # Set Environmental Variables | |
| ### | |
| - run: echo "CMAKE_PREFIX_PATH=${HOME}/environments/${{ matrix.hdf5 }}/" >> $GITHUB_ENV | |
| - run: echo "LD_LIBRARY_PATH=${HOME}/environments/${{ matrix.hdf5 }}/lib" >> $GITHUB_ENV | |
| - run: | | |
| echo "NETCDF_ENABLE_HDF5=OFF" >> $GITHUB_ENV | |
| if: matrix.use_nc4 == 'nc3' | |
| - run: | | |
| echo "NETCDF_ENABLE_HDF5=ON" >> $GITHUB_ENV | |
| if: matrix.use_nc4 == 'nc4' | |
| - run: echo "NETCDF_ENABLE_DAP=OFF" >> $GITHUB_ENV | |
| if: matrix.use_dap == 'dap_off' | |
| - run: echo "NETCDF_ENABLE_DAP=ON" >> $GITHUB_ENV | |
| if: matrix.use_dap == 'dap_on' | |
| - run: echo "NETCDF_ENABLE_NCZARR=OFF" >> $GITHUB_ENV | |
| if: matrix.use_nczarr == 'nczarr_off' | |
| - run: echo "NETCDF_ENABLE_NCZARR=ON" >> $GITHUB_ENV | |
| if: matrix.use_nczarr == 'nczarr_on' | |
| - run: echo "CTEST_OUTPUT_ON_FAILURE=1" >> $GITHUB_ENV | |
| ### | |
| # Fetch Cache | |
| ### | |
| - name: Fetch HDF Cache | |
| id: cache-hdf5 | |
| uses: actions/cache@v4 | |
| with: | |
| path: ~/environments/${{ matrix.hdf5 }} | |
| key: hdf5-${{ runner.os }}-${{ matrix.hdf5 }} | |
| - name: Check Cache | |
| shell: bash -l {0} | |
| run: ls ${HOME}/environments/${{ matrix.hdf5 }} && ls ${HOME}/environments/${{ matrix.hdf5}}/lib | |
| ### | |
| # Configure and build | |
| ### | |
| - name: Perform out-of-directory build | |
| shell: bash -l {0} | |
| run: | | |
| mkdir build | |
| cd build | |
| LD_LIBRARY_PATH=${LD_LIBRARY_PATH} cmake .. -DCMAKE_PREFIX_PATH=${CMAKE_PREFIX_PATH} -DNETCDF_ENABLE_DAP=${NETCDF_ENABLE_DAP} -DNETCDF_ENABLE_HDF5=${NETCDF_ENABLE_HDF5} -DNETCDF_ENABLE_NCZARR=${NETCDF_ENABLE_NCZARR} | |
| - name: Print Summary | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| cat libnetcdf.settings | |
| - name: Build All | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| LD_LIBRARY_PATH=${LD_LIBRARY_PATH} make -j 12 | |
| if: ${{ success() }} | |
| - name: Run Tests | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| LD_LIBRARY_PATH=${LD_LIBRARY_PATH} ctest --verbose -j 12 . | |
| if: ${{ success() }} | |
| - name: Verbose Output if CTest Failure | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| LD_LIBRARY_PATH=${LD_LIBRARY_PATH} ctest -j 12 --rerun-failed --output-on-failure -VV | |
| if: ${{ failure() }} |