# To set up the workspace on HPC for SRW App experiment run
cd /work2/noaa/epic/prpillai/UFS/
mkdir SRWTutorial_2
export work=/work2/noaa/epic/prpillai/UFS/SRWTutorial_2
cd SRWTutorial_2
ls -lrt
module load contrib
module show contrib
ls /apps/contrib/modulefiles
module load noaatools
module show noaatools
saccount_params



# To clone UFS SRW App from GitHub repository
git clone -b release/public-v3.0.0 https://github.com/ufs-community/ufs-srweather-app.git
ls -lrt 
export SRW=$work/ufs-srweather-app
cd ufs-srweather-app
git status -b
git branch -a
ls -lrt
ls manage_externals/
./manage_externals/checkout_externals



# To Build SRW App
uname -n
./devbuild.sh -p=Hercules
module use $SRW/modulefiles
module load wflow_hercules
conda activate srw_app



# To include composite reflectivity plotting update lradar: True in line #508 of parm/FV3.input.yml 
cd parm
vi FV3.input.yml 
[esc]
[:508] and [Enter] to navigate to line #508
[i]
lradar: True
[Esc]
[:wq] to save and exit



# Steps to configure the experiment
cd ush
ls -lrt config*.yaml
cp config.community.yaml config.yaml



# Update SRW App configuration file, "config.yaml" for user provided initial condition. lateral boundaru condition files, setting plotting parameters etc.

vi config.yaml
[i] 
user:
  RUN_ENVIR: community
  MACHINE: hercules
  ACCOUNT: epic

workflow:
  USE_CRON_TO_RELAUNCH: true
  CRON_RELAUNCH_INTVL_MNTS: 3

task_get_extrn_ics:
  USE_USER_STAGED_EXTRN_FILES: true
  EXTRN_MDL_SOURCE_BASEDIR_ICS: /work2/noaa/epic/prpillai/hercules/inputData/input_model_data/FV3GFS/grib2/2019061518

task_get_extrn_lbcs:
  USE_USER_STAGED_EXTRN_FILES: true
  EXTRN_MDL_SOURCE_BASEDIR_LBCS: /work2/noaa/epic/prpillai/hercules/inputData/input_model_data/FV3GFS/grib2/2019061518

task_plot_allvars:
  COMOUT_REF: ""
  PLOT_FCST_INC: 4
  PLOT_FCST_START: 1
  PLOT_DOMAINS: ["regional"]

rocoto:
  tasks:
    taskgroups: '{{ ["parm/wflow/prep.yaml", "parm/wflow/coldstart.yaml", "parm/wflow/post.yaml", "parm/wflow/plot.yaml"]|include }}'



# Generate the Rocoto workflow
./generate_FV3LAM_wflow.py



# Monitor the status of the work from "test_community" directory
cd /work2/noaa/epic/prpillai/UFS/SRWTutorial_2/expt_dirs/test_community
rocotostat -w FV3LAM_wflow.xml -d FV3LAM_wflow.db -v 10



# Monitor the status of the work from any directory
rocotostat -w /work2/noaa/epic/prpillai/UFS/SRWTutorial_2/expt_dirs/test_community/FV3LAM_wflow.xml -d /work2/noaa/epic/prpillai/UFS/SRWTutorial_2/expt_dirs/test_community/FV3LAM_wflow.db -v 10



# Outputs and Plots Quick Walkthrough
# switch to compute node and load the necessary modules for data 
srun -N 1 --x11 --pty bash
hostname



#Explore SRW App intermediate files and final outputs to see the file formats
ls -lrt grid
ls -lrt orog
ls -lrt sfc_climo
ls -lrt fix_lam
ls -lrt log
#Explore the content of a log file 
vi log/FV3LAM_wflow.log
:q

cd 2019061518
ls -lrt

ls -lrt RESTART/
cd postprd
ls -lrt


# To view the header of netCDF file one page at a time on the terminal screen
module avail netcdf
module load netcdf-c
ncdump -h dynf007.nc | more


# To view the content of grib2 file one page at a time on the terminal screen
module avail wgrib
module load wgrib2
wgrib2 srw.t18z.prslev.f011.rrfs_conus_25km.grib2 | more


# To convert a *,grib2 file to ".nc", netCDF file and view its header
wgrib2 srw.t18z.prslev.f011.rrfs_conus_25km.grib2 -netcdf srw_try.nc | more
ncdump -h srw_try.nc


# To view the PNG image files
module avail image
module load imagemagick
display refc_regional_f004.png
display 2mt_regional_f008.png
display qpf_regional_f012.png


# To compare two netCDF files
module avail nccmp
module list
nccmp -d phyf008.nc phyf008.nc
nccmp -d phyf008.nc phyf009.nc | more
nccmp -dfqS phyf008.nc phyf009.nc | more
nccmp --help