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Merge pull request #19 from fetch4/jwallwork23/giss-gc-14-rebased
Upgrade `develop` to v14.3.1
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| # This file contains global options for modelE. | ||
| # By default it assumes that the directory structure for modelE runs | ||
| # is set under /home/joe/data/giss-gc . | ||
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| ## Directory structure ## | ||
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| # DECKS_REPOSITORY - a directory for permanenet storage of run info. | ||
| # All rundecks that you create will be copied to this directory. | ||
| DECKS_REPOSITORY=/__w/GISS-GC/GISS-GC/run/prod_decks | ||
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| # CMRUNDIR - directory to which all run directories will be linked. | ||
| # This directory will be searched by most scripts for locations of | ||
| # specific runs. | ||
| CMRUNDIR=/__w/GISS-GC/GISS-GC/run/prod_runs | ||
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| # GCMSEARCHPATH - directory to search for gcm input files. | ||
| # All necessary input files should be copied or linked to this directory. | ||
| GCMSEARCHPATH=/__w/GISS-GC/GISS-GC/run/prod_input_files | ||
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| # EXECDIR - path to directory with modelE scripts and with some | ||
| # executables. This directory should contain the scripts from modelE/exec. | ||
| EXECDIR=/__w/GISS-GC/GISS-GC/run/exec | ||
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| # SAVEDISK - a directory where all run directories (which will contain | ||
| # all output files such as rsf, acc etc.) will be created. This should | ||
| # be big enough to accomodate all model output. | ||
| SAVEDISK=/__w/GISS-GC/GISS-GC/run/huge_space | ||
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| ## External libraries ## | ||
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| # Some of these options can be provided by environment modules (if you | ||
| # use them). Specify here only what is necessary. Options specified | ||
| # here will overwrite options proviided by environment modules. | ||
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| # NETCDFHOME - path to location of netcdf installation directory. | ||
| NETCDFHOME=${NETCDF_F_HOME} | ||
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| # MPI - set to YES if you want to compile the model for parallel | ||
| # execution on multiple CPU cores. Keep in mind, that functional | ||
| # MPI library should be installed on your computer and its type | ||
| # and location should be specified below. | ||
| # This option can be overwritten from the compile line. | ||
| MPI=YES | ||
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| # MPIDISTR - the MPI distribution you are using. Currently supported | ||
| # distributions are: 'intel, 'openmpi', 'mpich2', 'mvapich2', 'SCALI', | ||
| # 'mpt' | ||
| MPIDISTR=openmpi | ||
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| # MPIDIR - path to the MPI installation directory. (Needs to be set | ||
| # only if compiler can't find correct MPI library and include files by | ||
| # default) | ||
| # MPIDIR=/opt/openmpi | ||
| MPIDIR=${MPI_ROOT} | ||
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| # MPILIBDIR - path to the location of MPI library. Set it only if | ||
| # it is different from the default $MPIDIR/lib | ||
| # MPILIBDIR=/opt/openmpi/lib | ||
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| # MPIINCLUDEDIR - path to location of MPI include files. Set it only | ||
| # if it is different from the default $MPIDIR/include | ||
| # MPIINCLUDEDIR=/opt/openmpi/include | ||
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| # ESMF5_DIR - path to the installation directory of ESMF (version 5) | ||
| # library. (Required only for Cubed Sphere simulations) | ||
| # ESMF5_DIR= | ||
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| # ESMF_BOPT - optimization level of ESMF library. (Should only be used | ||
| # togeteher with ESMF5_DIR) | ||
| # ESMF_BOPT=O | ||
| ESMF=NO | ||
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| ## Architecture and compiler | ||
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| # ABI - Application Binary Interfaces. This variable specifies the | ||
| # architecture you are using. The valid values are '64' and '32'. | ||
| # On most modern systems you should use '64'. Use '32' if your | ||
| # hardware or compiler support only 32-bit binaries. | ||
| ABI=64 | ||
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| # COMPILER - specifies the Fortran compiler you are using. Currently | ||
| # only 'intel' and 'gfortran' are supported. ('nag' has partial | ||
| # support on development branch.) If you are using Modules for | ||
| # Environment Management, then this variable may already be set in the | ||
| # environment. In this case you don't need to set it here. | ||
| COMPILER=gfortran | ||
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| ## General User Preferences ## | ||
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| # MAILTO - email address of the user. When the program ends/crashes | ||
| # all notifications will be sent to this address. Leave empty | ||
| # or unset if you don't want to receive these emails | ||
| MAILTO= | ||
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| # UMASK - the value of 'umask' you want to use for model runs. The files | ||
| # inside the run directory will have permissions set according to this | ||
| # mask. | ||
| UMASK=002 | ||
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| # OVERWRITE - can "gmake rundeck" overwrite files already in repository? | ||
| # (i.e. in the directory DECKS_REPOSITORY) | ||
| OVERWRITE=NO | ||
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| # OUTPUT_TO_FILES - if set to YES all errors and warnings will be sent | ||
| # to files with the names <source_name>.ERR | ||
| OUTPUT_TO_FILES=NO | ||
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| # VERBOSE_OUTPUT - if set to YES gmake will show compilation commands | ||
| # and some other information. Otherwise most of the output will be | ||
| # suppressed | ||
| VERBOSE_OUTPUT=YES |
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| name: Test suite | ||
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| on: | ||
| # Trigger the CI whenever a commit is pushed to main or develop, i.e., a PR is merged | ||
| push: | ||
| branches: [main, develop] | ||
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| # Trigger the CI whenever a commit is pushed to an open PR | ||
| pull_request: | ||
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| env: | ||
| # Environment variables for GISS modelE | ||
| GISS_HOME: /__w/GISS-GC/GISS-GC | ||
| ModelE_Support: /__w/GISS-GC/GISS-GC/run | ||
| DATA: /__w/GISS-GC/GISS-GC/run/prod_input_files | ||
| # Environment variables for compiler | ||
| CC: gcc | ||
| CXX: g++ | ||
| FC: gfortran | ||
| F90: gfortran | ||
| F77: gfortran | ||
| # Misc. environment variables | ||
| F_UFMTENDIAN: big | ||
| KMP_STACKSIZE: 100000000 | ||
| OMP_NUM_THREADS: 36 | ||
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| jobs: | ||
| # Test that GISS-GC can be compiled without error | ||
| compile: | ||
| runs-on: ubuntu-22.04 | ||
| container: | ||
| image: ghcr.io/fetch4/giss-gc-dev-env:latest | ||
| credentials: | ||
| username: ${{ github.actor }} | ||
| password: ${{ secrets.github_token }} | ||
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| steps: | ||
| - uses: actions/checkout@v2 | ||
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| - name: Setup submodules | ||
| run: | | ||
| git config --global --add safe.directory ${GISS_HOME} | ||
| git submodule init | ||
| git submodule update | ||
| - name: Create fake inputs | ||
| run: | | ||
| # Make run directories | ||
| mkdir -p ${DATA} | ||
| mkdir -p ${ModelE_Support}/exec | ||
| mkdir -p ${ModelE_Support}/huge_space | ||
| mkdir -p ${ModelE_Support}/prod_decks | ||
| mkdir -p ${ModelE_Support}/prod_runs | ||
| # Fake input files | ||
| touch ${DATA}/CD144X90.ext.nc | ||
| touch ${DATA}/cloud.epsilon4.72x46 | ||
| touch ${DATA}/CO2profile.Jul16-2017.txt | ||
| touch ${DATA}/CROPS_and_pastures_Pongratz_to_Hurtt_144X90N_nocasp.nc | ||
| touch ${DATA}/dH2O_by_CH4_monthly | ||
| touch ${DATA}/GHG.CMIP6.1-2014.txt | ||
| touch ${DATA}/GIC.144X90.DEC01.1.ext_1.nc | ||
| touch ${DATA}/GLMELT_144X90_gas.OCN.nc | ||
| touch ${DATA}/H2Ocont_MT_CKD | ||
| touch ${DATA}/Irrig144x90_1848to2100_FixedFuture_v3.nc | ||
| touch ${DATA}/ISCCP.tautables | ||
| touch ${DATA}/LWCorrTables33k | ||
| touch ${DATA}/LWTables33k_lowH2O_CO2_O3_planck_1-800 | ||
| touch ${DATA}/miescatpar.abcdv2 | ||
| touch ${DATA}/MSU_SSU_RSS_weights.txt | ||
| touch ${DATA}/NCARIC.144x90.D7712010_ext.nc | ||
| touch ${DATA}/o3_2010_shindell_144x90x49_April1850.nc | ||
| touch ${DATA}/oct2003.relhum.nr.Q633G633.table | ||
| touch ${DATA}/OST_144x90.1876-1885avg.CMIP6.nc | ||
| touch ${DATA}/RD_Fd.nc | ||
| touch ${DATA}/RD_Fd.names.txt | ||
| touch ${DATA}/REG2X2.5 | ||
| touch ${DATA}/S144X900098M.ext.nc | ||
| touch ${DATA}/sgpgxg.table8 | ||
| touch ${DATA}/SICE_144x90.1876-1885avg.CMIP6.nc | ||
| touch ${DATA}/soil_textures_top30cm_2x2.5 | ||
| touch ${DATA}/soilcarb_top30cm_2x2.5.nc | ||
| touch ${DATA}/solar.CMIP6official.ann1850-2299_with_E3_fastJ.nc | ||
| touch ${DATA}/STRATAER.VOL.1850-2014_CMIP6_hdr | ||
| touch ${DATA}/top_index_144x90_a.ij.ext.nc | ||
| touch ${DATA}/topcld.trscat8 | ||
| touch ${DATA}/V144x90_EntMM16_height_trimmed_scaled_ext.nc | ||
| touch ${DATA}/V144x90_EntMM16_lai_max_trimmed_scaled_ext.nc | ||
| touch ${DATA}/V144x90_EntMM16_lai_trimmed_scaled_ext.nc | ||
| touch ${DATA}/V144x90_EntMM16_lc_max_trimmed_scaled_nocrops.ext.nc | ||
| touch ${DATA}/Z2HX2fromZ1QX1N.BS1.nc | ||
| touch ${DATA}/ZSIfac_144x90.1876-1885avg.CMIP6.nc | ||
| touch ${DATA}/ZVAR2X25A.nc | ||
| mkdir -p ${DATA}/cmip6_nint_inputs_E14TomaOCNf10_4av_decadal/BCA | ||
| mkdir -p ${DATA}/cmip6_nint_inputs_E14TomaOCNf10_4av_decadal/BCB | ||
| mkdir -p ${DATA}/cmip6_nint_inputs_E14TomaOCNf10_4av_decadal/BCdalbsn | ||
| mkdir -p ${DATA}/cmip6_nint_inputs_E14TomaOCNf10_4av_decadal/DUST | ||
| mkdir -p ${DATA}/cmip6_nint_inputs_E14TomaOCNf10_4av_decadal/NIT | ||
| mkdir -p ${DATA}/cmip6_nint_inputs_E14TomaOCNf10_4av_decadal/O3 | ||
| mkdir -p ${DATA}/cmip6_nint_inputs_E14TomaOCNf10_4av_decadal/OCA | ||
| mkdir -p ${DATA}/cmip6_nint_inputs_E14TomaOCNf10_4av_decadal/SSA | ||
| mkdir -p ${DATA}/cmip6_nint_inputs_E14TomaOCNf10_4av_decadal/SUL | ||
| mkdir -p ${DATA}/nudging/merra2 | ||
| touch ${DATA}/nudging/merra2/uwnd.2014.MERRA2onGISSE2.nc4 | ||
| touch ${DATA}/nudging/merra2/vwnd.2014.MERRA2onGISSE2.nc4 | ||
| touch ${DATA}/nudging/merra2/uwnd.2015.MERRA2onGISSE2.nc4 | ||
| touch ${DATA}/nudging/merra2/vwnd.2015.MERRA2onGISSE2.nc4 | ||
| touch ${DATA}/nudging/merra2/uwnd.2016.MERRA2onGISSE2.nc4 | ||
| touch ${DATA}/nudging/merra2/vwnd.2016.MERRA2onGISSE2.nc4 | ||
| - name: Build GISS-GC with GISS_GC_14 rundeck | ||
| run: | | ||
| . /opt/spack-environment/activate.sh | ||
| export RUNID=GISS_GC_14 | ||
| # Environment variables for passing NetCDF-C paths to GEOS-Chem | ||
| export NETCDF_HOME=$(nc-config --prefix) | ||
| export GC_BIN=${NETCDF_HOME}/bin | ||
| export GC_INCLUDE=${NETCDF_HOME}/include | ||
| export GC_LIB=${NETCDF_HOME}/lib | ||
| # Environment variables for passing NetCDF-Fortran paths to GEOS-Chem | ||
| export NETCDF_F_HOME=$(nf-config --prefix) | ||
| export GC_F_BIN=${NETCDF_F_HOME}/bin | ||
| export GC_F_INCLUDE=${NETCDF_F_HOME}/include | ||
| export GC_F_LIB=${NETCDF_F_HOME}/lib | ||
| # Environment variable for OpenMPI build | ||
| export MPI_ROOT=/opt/software/linux-ubuntu22.04-skylake/gcc-11.4.0/openmpi-4.1.6-s3fu5gvaasgjy4jecnb6rvemx7oofexx | ||
| # Copy over rundeck and modelErc | ||
| cp .github/rundecks/${RUNID}.R decks | ||
| cp .github/modelErc ~/.modelErc | ||
| # Build the model | ||
| cd decks | ||
| make -j setup RUN=${RUNID} F90=mpif90 GC=YES |
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| [submodule "model/geos-chem/src"] | ||
| path = model/geos-chem/src | ||
| url = git@github.com:fetch4/geos-chem.git | ||
| branch = dev/giss-gc | ||
| [submodule "model/geos-chem/src/GEOS-Chem"] | ||
| path = model/geos-chem/src/GEOS-Chem | ||
| url = https://github.com/fetch4/geos-chem.git | ||
| branch = dev/giss-gc-14 | ||
| [submodule "model/geos-chem/src/HEMCO"] | ||
| path = model/geos-chem/src/HEMCO | ||
| url = https://github.com/fetch4/HEMCO.git | ||
| branch = dev/giss-gc-14 | ||
| [submodule "model/geos-chem/src/Cloud-J"] | ||
| path = model/geos-chem/src/Cloud-J | ||
| url = https://github.com/fetch4/Cloud-J.git | ||
| branch = dev/giss-gc-14 |
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