phytoplankton mortality and zooplankton grazing parameter definitions… #275
Workflow file for this run
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| name: cobalt CI | |
| # Controls when the workflow will run | |
| on: | |
| # Triggers the workflow on push or pull request events but only for the "dev/cefi" branch | |
| push: | |
| branches: [ "dev/cefi" ] | |
| pull_request: | |
| branches: [ "dev/cefi" ] | |
| env: | |
| BRANCH_NAME: main | |
| jobs: | |
| # This workflow contains a single job called "build" | |
| build: | |
| # The type of runner that the job will run on | |
| runs-on: ubuntu-latest | |
| # define container | |
| #container: | |
| # image: clouden90/1d_mom6_cobalt:base | |
| # options: --user root | |
| container: | |
| image: quay.io/singularity/singularity:v4.1.0 | |
| options: --privileged | |
| # Steps represent a sequence of tasks that will be executed as part of the job | |
| steps: | |
| # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it | |
| - name: Checkout Repository | |
| uses: actions/checkout@v4 | |
| with: | |
| submodules: recursive | |
| - uses: jitterbit/get-changed-files@v1 | |
| id: abc | |
| with: | |
| format: space-delimited | |
| token: ${{ secrets.GITHUB_TOKEN }} | |
| # git clone CEFI-regional-MOM6 and replace ocean_BGC | |
| - name: git clone CEFI-regional-MOM6 | |
| run: | | |
| which singularity | |
| cd .. | |
| git clone -b $BRANCH_NAME https://github.com/NOAA-GFDL/CEFI-regional-MOM6.git --recursive | |
| rm -rf CEFI-regional-MOM6/src/ocean_BGC | |
| cp -r ocean_BGC CEFI-regional-MOM6/src | |
| cd CEFI-regional-MOM6/src/ocean_BGC && git branch | |
| - name: Download model input dataset | |
| working-directory: ../CEFI-regional-MOM6/exps | |
| run: | | |
| echo "Download dataset..." | |
| wget -q ftp://ftp.gfdl.noaa.gov/pub/Yi-cheng.Teng/1d_ci_datasets.tar.gz && tar -zxvf 1d_ci_datasets.tar.gz && rm -rf 1d_ci_datasets.tar.gz | |
| ls -l -h | |
| - name: Build 1D mom6sis2-cobalt Image | |
| working-directory: ../CEFI-regional-MOM6/ci/singularity | |
| run: | | |
| echo "image build ..." | |
| singularity build 1d_mom6_cobalt.sif ./build_1d_mom6_cobalt.def | |
| - name: Build mom6sis2-cobalt | |
| working-directory: ../CEFI-regional-MOM6/builds | |
| run: | | |
| echo "build mom6sis2..." | |
| singularity exec --bind /__w:/__w ../ci/singularity/1d_mom6_cobalt.sif bash linux-build.bash -m docker -p linux-gnu -t debug -f mom6sis2_yaml | |
| ls -l -h build/docker-linux-gnu/ocean_ice/debug/MOM6SIS2 | |
| # - name: Create COBALT_input and COBALT_override to test MOM-style parameter input and override | |
| # working-directory: ../CEFI-regional-MOM6/exps/OM4.single_column.COBALT | |
| # run: | | |
| # echo "add cobalt_input_nml ..." | |
| # cat <<EOL >> ./input.nml_48hr | |
| # &cobalt_input_nml | |
| # parameter_filename = 'COBALT_input','COBALT_override' | |
| # / | |
| # EOL | |
| # cat input.nml_48hr | |
| # cat <<EOL >> ./input.nml_24hr | |
| # &cobalt_input_nml | |
| # parameter_filename = 'COBALT_input','COBALT_override' | |
| # / | |
| # EOL | |
| # cat input.nml_24hr | |
| # cat <<EOL >> ./input.nml_24hr_rst | |
| # &cobalt_input_nml | |
| # parameter_filename = 'COBALT_input','COBALT_override' | |
| # / | |
| # EOL | |
| # sed -i 's/use_modern_diag=.true./use_modern_diag=.false./' ./input.nml_24hr_rst | |
| # cat input.nml_24hr_rst | |
| # echo "touch COBALT_input ..." | |
| # [[ -f COBALT_input ]] && rm COBALT_input | |
| # echo "remin_ramp_scale = 100.0" > COBALT_input | |
| # cat COBALT_input | |
| # echo "touch COBALT_override ..." | |
| # [[ -f COBALT_override ]] && rm COBALT_override | |
| # echo "#override remin_ramp_scale = 50.0" > COBALT_override | |
| # cat COBALT_override | |
| - name: Run 1D toy case | |
| working-directory: ../CEFI-regional-MOM6/exps/OM4.single_column.COBALT | |
| run: | | |
| echo "Start 1D toy case ..." | |
| pwd | |
| singularity exec --bind /__w:/__w ../../ci/singularity/1d_mom6_cobalt.sif ./driver.sh | |
| #singularity exec --bind /__w:/__w ../../ci/singularity/1d_mom6_cobalt.sif ../../builds/build/docker-linux-gnu/ocean_ice/debug/MOM6SIS2 | |
| cat ./RESTART_48hrs/ocean.stats | |
| - name: Check with ref | |
| working-directory: ../CEFI-regional-MOM6/exps/OM4.single_column.COBALT | |
| run: | | |
| echo "new 48 hrs ocean.stats: " | |
| cat ./RESTART_48hrs/ocean.stats | |
| echo "baseline 48 hrs ocean.stats: " | |
| cat ../../src/ocean_BGC/.github/ref/OM4.single_column.COBALT.p4/docker-linux-gnu/ocean.stats | |
| # | |
| diff -q ./RESTART_48hrs/ocean.stats ../../src/ocean_BGC/.github/ref/OM4.single_column.COBALT.p4/docker-linux-gnu/ocean.stats > /dev/null || { echo "Error: ocean.stats are different."; echo "Plz update ocean_BGC/.github/ref/OM4.single_column.COBALT.p4/docker-linux-gnu/ocean.stats with the following: "; cat ./RESTART_48hrs/ocean.stats; exit 1; } |