Enable EP4a experiments (DO NOT MERGE)

[rmontuoro]

Please do not merge.

This draft PR is only intended to illustrate the changes required to run Ensemble Prototype 4 with aerosols (EP4a) experiments in order to inform future GEFSv13-related development.

Instructions on how to set up and run an EP4a experiment using the updates included in this PR are provided below:

Workflow instructions for EP4a

1. Clone the forked repository, branch gefs/ep4a

$ git clone -b gefs/ep4a https://github.com/rmontuoro/global-workflow

2. Checkout EP4a and other workflow components

$ cd sorc/
$ ./checkout.sh -p EP4A

3. Build and link components

$ ./build_all.sh
$ ./link_workflow.sh
$ cd ../workflow/

5. Load shell environment

$ source gw_setup.sh
$ set +u

6. Set the PSLOT (case name), EXPDIR, and COMROT variables

7. Create experiment directories

$ ./setup_expt.py gefs forecast-only --proto EP4A --idate 2018010300 --edate 2018010300 --gfs_cyc 1 --pslot $PSLOT --comrot $COMROT --expdir $EXPDIR --nens 10

9. Stage ICs (see below)

10. Create workflow

$ ./setup_xml.py $EXPDIR/$PSLOT --maxtries 1

11. Run workflow

$ cd $EXPDIR/$PSLOT
$ rocotorun -w $PSLOT.xml -d $PSLOT.db -v 10

Staging initial condition files

Initial conditions must be manually staged to the $COMROT/$PSLOT directory according to the directory structure below.
Ensemble members are labeled mem###, with mem000 being the control member.

Previous cycle:

gefs.20180102/
|-- 18/
    |-- mem001/
        |-- model_data/
            |-- ice/
                |-- restart/
                    |-- 20180103.000000.cice_model.res.nc

Current cycle:

gefs.20180103/
|-- 00/
    |-- mem001/
        |-- model_data/
            |-- atmos/
            |   |-- input/
            |        |-- gfs_ctrl.nc
            |        |-- gfs_data.tile1.nc
            |        |-- gfs_data.tile2.nc
            |        |-- gfs_data.tile3.nc
            |        |-- gfs_data.tile4.nc
            |        |-- gfs_data.tile5.nc
            |        |-- gfs_data.tile6.nc
            |        |-- sfc_data.tile1.nc
            |        |-- sfc_data.tile2.nc
            |        |-- sfc_data.tile3.nc
            |        |-- sfc_data.tile4.nc
            |        |-- sfc_data.tile5.nc
            |        |-- sfc_data.tile6.nc
            |-- ocean/
            |   |-- input/
            |       |-- mem001_pert.nc
            |       |-- ORAS5.mx025.ic.nc
            |-- wave/
                |-- prep/
                    |-- gefswave.mod_def.glo_025

[github-advanced-security]

shellcheck found more than 10 potential problems in the proposed changes. Check the Files changed tab for more details.

[aerorahul]

@rmontuoro
How long is this to be kept open?
Users can always refer to this PR from the closed pull requests tab if necessary.

[aerorahul]

This branch is stale and with conflicts.
Please reopen when ready for review.