update reference and add more checks in ci (#4) #20
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| # This is a basic workflow to help you get started with Actions | |
| 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" ] | |
| # Allows you to run this workflow manually from the Actions tab | |
| workflow_dispatch: | |
| # A workflow run is made up of one or more jobs that can run sequentially or in parallel | |
| 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 | |
| # 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@v3 | |
| with: | |
| submodules: recursive | |
| # Install wget and get data | |
| - name: Install wget and get data | |
| run: | | |
| apt-get update | |
| apt-get install -y wget | |
| cd /opt | |
| wget https://gfdl-med.s3.amazonaws.com/OceanBGC_dataset/1d_datasets.tar.gz | |
| tar -zxvf 1d_datasets.tar.gz | |
| rm -rf 1d_datasets.tar.gz | |
| # git clone MOM6_OBGC_examples and replace ocean_BGC | |
| - name: git clone MOM6_OBGC_examples and build mom6sis2-cobalt | |
| run: | | |
| cd .. | |
| git clone https://github.com/NOAA-CEFI-Regional-Ocean-Modeling/MOM6_OBGC_examples.git --recursive | |
| rm -rf MOM6_OBGC_examples/src/ocean_BGC | |
| cp -r ocean_BGC MOM6_OBGC_examples/src | |
| cd MOM6_OBGC_examples/builds | |
| ./linux-build.bash -m docker -p linux-gnu -t prod -f mom6sis2 | |
| # run 1D mom6sis2-cobalt test | |
| - name: 1D mom6sis2-cobalt test | |
| run: | | |
| cd ../MOM6_OBGC_examples/exps | |
| ln -fs /opt/datasets ./ | |
| cd OM4.single_column.COBALT.p4 | |
| mkdir RESTART | |
| mpirun --allow-run-as-root -np 1 ../../builds/build/docker-linux-gnu/ocean_ice/prod/MOM6SIS2 | |
| - name: baseline check | |
| run: | | |
| cd ../MOM6_OBGC_examples/exps/OM4.single_column.COBALT.p4 | |
| mkdir -p ref | |
| cp ../../src/ocean_BGC/.github/ref/OM4.single_column.COBALT.p4/docker-linux-gnu/* ./ref | |
| # check ocean.stats | |
| echo "Check with ref ocean.stats" | |
| diff -q ref/ocean.stats ./ocean.stats > /dev/null || { echo "Error: ocean.stats are different, check and update ref! Exiting now..."; exit 1; } | |
| # check MOM.res.nc | |
| echo "check with ref MOM.res.nc" | |
| ncdump ref/MOM.res.nc > org_ref.txt | |
| ncdump RESTART/MOM.res.nc > new_ref.txt | |
| diff -q ./org_ref.txt ./new_ref.txt > /dev/null || { echo "Error: MOM.res.nc are different, check and update ref! Exiting now..."; exit 1; } | |
| rm org_ref.txt && rm new_ref.txt | |
| # check with ref ocean_cobalt_airsea_flux.res.nc | |
| echo "check with ref ocean_cobalt_airsea_flux.res.nc" | |
| ncdump ref/ocean_cobalt_airsea_flux.res.nc > org_ref.txt | |
| ncdump RESTART/ocean_cobalt_airsea_flux.res.nc > new_ref.txt | |
| diff -q ./org_ref.txt ./new_ref.txt > /dev/null || { echo "Error: ocean_cobalt_airsea_flux.res.nc are different, check and update ref! Exiting now..."; exit 1; } | |
| rm org_ref.txt && rm new_ref.txt | |
| # check with ref ice_cobalt.res.nc | |
| echo "check with ref ice_cobalt.res.nc" | |
| ncdump ref/ice_cobalt.res.nc > org_ref.txt | |
| ncdump RESTART/ice_cobalt.res.nc > new_ref.txt | |
| diff -q ./org_ref.txt ./new_ref.txt > /dev/null || { echo "Error: ice_cobalt.res.nc are different, check and update ref! Exiting now..."; exit 1; } | |
| rm org_ref.txt && rm new_ref.txt | |
| # check with ref ice_model.res.nc | |
| echo "check with ref ice_model.res.nc" | |
| ncdump ref/ice_model.res.nc > org_ref.txt | |
| ncdump RESTART/ice_model.res.nc > new_ref.txt | |
| diff -q ./org_ref.txt ./new_ref.txt > /dev/null || { echo "Error: ice_model.res.nc are different, check and update ref! Exiting now..."; exit 1; } | |
| rm org_ref.txt && rm new_ref.txt |