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plot_rrfscmaq_bio.py
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plot_rrfscmaq_bio.py
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###################################################################### CHJ #####
## Name : plot_rrfscmaq_bio.py
## Language : Python 3.7
## Usage : Plot an input bio file for rrfs_cmaq
## Input files : BEIS_CRES.ncf
## NOAA/NWS/NCEP/EMC
## History ===============================
## V000: 2021/06/29: Chan-Hoo Jeon : Preliminary version
## V001: 2021/07/12: Chan-Hoo Jeon : Add grid_spec.nc
###################################################################### CHJ #####
import os, sys
import matplotlib
matplotlib.use('Agg')
import matplotlib.pyplot as plt
import matplotlib.colors as colors
import numpy as np
from netCDF4 import Dataset
import cartopy.crs as ccrs
import cartopy.feature as cfeature
import cartopy
from mpl_toolkits.axes_grid1 import make_axes_locatable
# HPC machine ('hera','orion')
machine='hera'
print(' You are on', machine)
#### Machine-specific input data ==================================== CHJ =====
# cartopy.config: Natural Earth data for background
# out_fig_dir: directory where the output files are created
# mfdt_kwargs: mfdataset argument
if machine=='hera':
cartopy.config['data_dir']='/scratch2/NCEPDEV/fv3-cam/Chan-hoo.Jeon/tools/NaturalEarth'
out_fig_dir="/scratch2/NCEPDEV/fv3-cam/Chan-hoo.Jeon/tools/fv3sar_pre_plot/Fig/"
mfdt_kwargs={'parallel':False}
elif machine=='orion':
cartopy.config['data_dir']='/home/chjeon/tools/NaturalEarth'
out_fig_dir="/work/noaa/fv3-cam/chjeon/tools/Fig/"
mfdt_kwargs={'parallel':False,'combine':'by_coords'}
else:
sys.exit('ERROR: Required input data are NOT set !!!')
plt.switch_backend('agg')
# Case-dependent input =============================================== CHJ =====
# Path to the directory where the input NetCDF file is located.
dnm_in="/scratch2/NCEPDEV/naqfc/RRFS_CMAQ/aqm/bio/"
# Path to grid_spec.nc
dnm_gs="/scratch2/NCEPDEV/naqfc/RRFS_CMAQ/nexus/fix/"
# Domain name
#domain_nm="GSD_HRRR_25km"
domain_nm="RRFS_CONUS_13km"
# input/grid_spec file names
if domain_nm=="GSD_HRRR_25km":
fnm_input="BEIS_SARC401.ncf"
grd_spc="grid_spec_GRD_HRRR_25km.nc"
elif domain_nm=="RRFS_CONUS_13km":
fnm_input="BEIS_RRFScmaq_C775.ncf"
grd_spc="grid_spec_RRFS_CONUS_13km.nc"
else:
sys.exit('ERROR: Wrong domain name !!!')
# Variables
vars_all='no'
if vars_all=='yes':
vars_data=["AVG_NOAG_GROW","AVG_NOAG_NONGROW","AVG_NONONAG","AVG_ACETS","AVG_ACTACS",
"AVG_ACTALS","AVG_APINS","AVG_ATERPS","AVG_ATHUS","AVG_BPHES","AVG_BPINS",
"AVG_BUTES","AVG_BUTOS","AVG_CAMPHS","AVG_COS","AVG_D3CARS","AVG_DLIMS",
"AVG_ETHAS","AVG_ETHES","AVG_ETHOS","AVG_FORACS","AVG_FORMS","AVG_GTERPS",
"AVG_HEXAS","AVG_HEXES","AVG_HEXYS","AVG_ISOPS","AVG_MBOS","AVG_METHS",
"AVG_MYRCS","AVG_OCIMS","AVG_ORVOCS","AVG_PCYMS","AVG_PROPES","AVG_SABIS",
"AVG_SESQTS","AVG_TRPOS","LAI_ISOPS","LAI_MBOS","LAI_METHS","AVG_ACETW",
"AVG_ACTACW","AVG_ACTALW","AVG_APINW","AVG_ATERPW","AVG_ATHUW","AVG_BPHEW",
"AVG_BPINW","AVG_BUTEW","AVG_BUTOW","AVG_CAMPHW","AVG_COW","AVG_D3CARW",
"AVG_DLIMW","AVG_ETHAW","AVG_ETHEW","AVG_ETHOW","AVG_FORACW","AVG_FORMW",
"AVG_GTERPW","AVG_HEXAW","AVG_HEXEW","AVG_HEXYW","AVG_ISOPW","AVG_MBOW",
"AVG_METHW","AVG_MYRCW","AVG_OCIMW","AVG_ORVOCW","AVG_PCYMW","AVG_PROPEW",
"AVG_SABIW","AVG_SESQTW","AVG_TRPOW","LAI_ISOPW","LAI_MBOW","LAI_METHW"]
else:
vars_data=["AVG_NOAG_GROW"]
# basic forms of title and file name
out_title_base='RRFS-CMAQ::Bio::'+domain_nm+'::'
out_fname_base='rrfscmaq_bio_'+domain_nm+'_'
# Resolution of background natural earth data ('10m' or '50m' or '110m')
back_res='50m'
# Main part (will be called at the end) ======================= CHJ =====
def main():
# ============================================================= CHJ =====
global ds,lon,lat
global extent,c_lon,c_lat
print(' ===== grid_spec =========================================')
fnm0=os.path.join(dnm_gs,grd_spc)
try: gs=Dataset(fnm0,'r')
except: raise Exception('Could NOT find the file',fname)
print(gs)
lon_ref=gs.variables['grid_lont'][:]
lat_ref=gs.variables['grid_latt'][:]
# Highest and lowest longitudes and latitudes for reference
lonr_min=np.min(lon_ref)
lonr_max=np.max(lon_ref)
latr_min=np.min(lat_ref)
latr_max=np.max(lat_ref)
print(' lon_ref_min=',lonr_min,', lon_ref_max=',lonr_max)
print(' lat_ref_min=',latr_min,', lat_ref_max=',latr_max)
# Longitude 0:360 => -180:180
if lonr_max>180:
lon_ref=(lon_ref+180)%360-180
print(' ===== Input data ========================================')
# open the data file
fname=os.path.join(dnm_in,fnm_input)
try: ds=Dataset(fname,'r')
except: raise Exception('Could NOT find the file',fname)
print(ds)
lon=ds.variables['XLONG'][:]
lat=ds.variables['XLAT'][:]
# Highest and lowest longitudes and latitudes for plot extent
lon_min=np.min(lon)
lon_max=np.max(lon)
lat_min=np.min(lat)
lat_max=np.max(lat)
print(' lon_min=',lon_min,', lon_max=',lon_max)
print(' lat_min=',lat_min,', lat_max=',lat_max)
# Check grid size
grd_sz_gs=lon_ref.shape
grd_sz_ds=lon.shape
if grd_sz_gs==grd_sz_ds:
print(' ===== Grid sizes matched ! =====')
else:
sys.exit(' ===== ERROR: grid sizes NOT matched !!! =====')
# Grid difference
diff_lon=np.abs(lon_ref-lon)
diff_lat=np.abs(lat_ref-lat)
e_lon=np.max(diff_lon)
e_lat=np.max(diff_lat)
print(' max. grid difference, lon=',e_lon)
print(' max. grid difference, lat=',e_lat)
if e_lon>0.01 or e_lat>0.01:
sys.exit(' ===== ERROR: lon/lat NOT matched !!! =====')
# Plot extent
esp=1
extent=[lon_min-esp,lon_max+esp,lat_min-esp,lat_max+esp]
c_lon=np.mean(extent[:2])
c_lat=np.mean(extent[2:])
# Variables
for svar in vars_data:
data_plot(svar)
# ===== plot ================================================== CHJ =====
def data_plot(svar):
# ============================================================= CHJ =====
print(' ===== '+svar+' ===== data ===============================')
# Extract data array
sfld=ds.variables[svar][:]
ndim_svar=sfld.ndim
if ndim_svar==2:
(nys,nxs)=sfld.shape
print(' 2D: nys=',nys,' nxs=',nxs)
sfld2d=sfld
elif ndim_svar==3:
(nts,nys,nxs)=sfld.shape
print(' time+2D: nts=',nts,' nys=',nys,' nxs=',nxs)
sfld2d=np.squeeze(sfld,axis=0)
out_title_fld=out_title_base+svar
out_fname=out_fname_base+svar
nm_svar=svar
cs_cmap='nipy_spectral_r'
lb_ext='neither'
tick_ln=1.5
tick_wd=0.45
tlb_sz=3
n_rnd=0
cmap_range='round'
if svar=="AVG_NOAG_GROW":
n_rnd=0
# Max and Min of the field
fmax=np.max(sfld2d)
fmin=np.min(sfld2d)
print(' fld_max=',fmax)
print(' flx_min=',fmin)
# Make the colormap range symmetry
print(' cmap range=',cmap_range)
if cmap_range=='symmetry':
tmp_cmp=max(abs(fmax),abs(fmin))
cs_min=round(-tmp_cmp,n_rnd)
cs_max=round(tmp_cmp,n_rnd)
elif cmap_range=='round':
cs_min=round(fmin,n_rnd)
cs_max=round(fmax,n_rnd)
elif cmap_range=='real':
cs_min=fmin
cs_max=fmax
elif cmap_range=='fixed':
cs_min=-10.0
cs_max=10.0
else:
sys.exit('ERROR: wrong colormap-range flag !!!')
print(' cs_max=',cs_max)
print(' cs_min=',cs_min)
# Plot field
if domain_nm[:7]=='RRFS_NA':
fig,ax=plt.subplots(1,1,subplot_kw=dict(projection=ccrs.Orthographic(
central_longitude=-107,central_latitude=53)))
else:
fig,ax=plt.subplots(1,1,subplot_kw=dict(projection=ccrs.Robinson(c_lon)))
ax.set_extent(extent, ccrs.PlateCarree())
back_plot(ax)
ax.set_title(out_title_fld,fontsize=9)
cs=ax.pcolormesh(lon,lat,sfld2d,cmap=cs_cmap,rasterized=True,
vmin=cs_min,vmax=cs_max,transform=ccrs.PlateCarree())
divider=make_axes_locatable(ax)
ax_cb=divider.new_horizontal(size="3%",pad=0.1,axes_class=plt.Axes)
fig.add_axes(ax_cb)
cbar=plt.colorbar(cs,cax=ax_cb,extend=lb_ext)
cbar.ax.tick_params(labelsize=6)
cbar.set_label(nm_svar,fontsize=6)
# Output figure
ndpi=300
out_file(out_fname,ndpi)
# Background plot ========================================== CHJ =====
def back_plot(ax):
# ========================================================== CHJ =====
fline_wd=0.5 # line width
falpha=0.3 # transparency
# natural_earth
# land=cfeature.NaturalEarthFeature('physical','land',back_res,
# edgecolor='face',facecolor=cfeature.COLORS['land'],
# alpha=falpha)
lakes=cfeature.NaturalEarthFeature('physical','lakes',back_res,
edgecolor='blue',facecolor='none',
linewidth=fline_wd,alpha=falpha)
coastline=cfeature.NaturalEarthFeature('physical','coastline',
back_res,edgecolor='blue',facecolor='none',
linewidth=fline_wd,alpha=falpha)
states=cfeature.NaturalEarthFeature('cultural','admin_1_states_provinces',
back_res,edgecolor='black',facecolor='none',
linewidth=fline_wd,linestyle=':',alpha=falpha)
borders=cfeature.NaturalEarthFeature('cultural','admin_0_countries',
back_res,edgecolor='red',facecolor='none',
linewidth=fline_wd,alpha=falpha)
# ax.add_feature(land)
ax.add_feature(lakes)
ax.add_feature(states)
ax.add_feature(borders)
ax.add_feature(coastline)
# Output file ============================================= CHJ =====
def out_file(out_file,ndpi):
# ========================================================= CHJ =====
# Output figure
plt.savefig(out_fig_dir+out_file+'.png',dpi=ndpi,bbox_inches='tight')
plt.close('all')
# Main call ================================================ CHJ =====
if __name__=='__main__':
main()