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run.py
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run.py
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#!/usr/bin/env python
# coding: utf-8
### By Jethan d'Hotman
### Created April 2024
import copernicusmarine
from datetime import datetime, timedelta
import xarray as xr
import matplotlib.pyplot as plt
import cartopy.crs as ccrs
#from cartopy.io import shapereader
#from cartopy.feature import NaturalEarthFeature
import cartopy.feature as cfeature
import os
import numpy as np
import sys
import time
# command line inputs
username = sys.argv[1]
password = sys.argv[2]
sender_email = sys.argv[3]
sender_password = sys.argv[4]
#copernicusmarine.login()
# Transect
Sundays = 25.89723, -33.76603
#AB_80m = 26.12382, -33.94718
#AB_60m = 25.98882, -33.88108
offshore = 26.53570, -34.37877
#-34.483524948379234, 26.28863114952022
transect_lons = [Sundays[0],offshore[0]]
transect_lats = [Sundays[1],offshore[1]]
# OSTIA SST L4
Data_ID = 'METOFFICE-GLO-SST-L4-NRT-OBS-SST-V2'
# Region of interest
Latitude = [-45,-25]
Longitude = [15,35]
variables = ["analysed_sst"]
my_time = (datetime.now() - timedelta(1)).strftime('%Y-%m-%d')
output_fname = 'OSTIA_SST_SA_' + my_time +'.nc'
#print('Date: ', my_time)
# Error handling
# Download and plot latest OSTIA SST
MAX_RETRIES = 3
RETRY_WAIT = 10
i = 0
while i < MAX_RETRIES:
try:
print('Attempting download of OSTIA SST data. Attempt No: ',str(i))
sst_data_file = copernicusmarine.subset(dataset_id=Data_ID,
username = username,
password = password,
minimum_longitude = min(Longitude),
maximum_longitude = max(Longitude),
minimum_latitude= min(Latitude),
maximum_latitude = max(Latitude),
start_datetime = my_time,
end_datetime = my_time,
variables = variables,
output_filename = output_fname,
force_download=True)
break
except Exception as e:
print('Failed to download SST data')
time.sleep(RETRY_WAIT)
i+=1
if os.path.exists(output_fname) == True:
print('Generating SST plot')
sst_data = xr.open_dataset(sst_data_file)
sst_data = sst_data.squeeze()
title = 'SST Map for: ' + my_time
fig = plt.figure(figsize=(10, 8))
ax = fig.add_subplot(1, 1, 1, projection=ccrs.PlateCarree())
plt.title(title,fontweight='bold')
sst_plot = ax.pcolor(sst_data.longitude,sst_data.latitude,sst_data.analysed_sst-272.15,cmap='plasma')#, extend='both')
cax = fig.add_axes([0.22, 0.83, 0.18, 0.02])
cbar = fig.colorbar(sst_plot, cax=cax, orientation='horizontal',label='$^o$C',extend='both')
cbar.set_label(label='$^o$C',fontweight='bold')
# Add coastline and land
ax.coastlines(resolution='10m')
ax.add_feature(cfeature.LAND, color='lightgray')
ax.add_feature(cfeature.LAND, edgecolor='black', facecolor='lightgray')
#rivers = cfeature.NaturalEarthFeature('physical', 'rivers_lake_centerlines', '10m', edgecolor='blue', facecolor='none')
#ax.add_feature(rivers)
# Add transect
ax.plot(transect_lons,transect_lats,color='black')
#ax.plot(Sundays[0],Sundays[1],'.',color='white',markersize=10)
#ax.plot(AB_60m[0],AB_60m[1],'.',color='white',markersize=10)
#ax.plot(AB_80m[0],AB_80m[1],'.',color='white',markersize=10)
ax.plot(30.81, -29.8579,'.',color='Black',markersize=10)
ax.text(29.5,-29.5,'Durban')
# Add gridlines
ax.gridlines(draw_labels=True)
plt_fname = 'SouthernAfrica_SST_' + my_time + '.png'
fig.savefig(plt_fname,bbox_inches='tight')
plt.show()
####### Second figure #######
fig1 = plt.figure(figsize=(10, 8))
ax = fig1.add_subplot(1, 1, 1, projection=ccrs.PlateCarree())
plt.title(title,fontweight='bold')
sst_plot = ax.pcolor(sst_data.longitude,sst_data.latitude,sst_data.analysed_sst-272.15,cmap='plasma')#, extend='both')
cax = fig1.add_axes([0.21, 0.83, 0.18, 0.02])
cbar = fig1.colorbar(sst_plot, cax=cax, orientation='horizontal',label='$^o$C',extend='both')
cbar.set_label(label='$^o$C',fontweight='bold')
# Add coastline and land
ax.coastlines(resolution='10m')
ax.add_feature(cfeature.LAND, color='lightgray')
ax.add_feature(cfeature.LAND, edgecolor='black', facecolor='lightgray')
#rivers = cfeature.NaturalEarthFeature('physical', 'rivers_lake_centerlines', '10m', edgecolor='blue', facecolor='none')
#ax.add_feature(rivers)
# Set the extent to cover Algoa Bay
ax.set_extent([25.5, 32, -35, -29])
# Add transect
ax.plot(transect_lons,transect_lats,color='black')
#ax.plot(Sundays[0],Sundays[1],'.',color='white',markersize=10)
#ax.plot(AB_60m[0],AB_60m[1],'.',color='white',markersize=10)
#ax.plot(AB_80m[0],AB_80m[1],'.',color='white',markersize=10)
ax.plot(31, -29.87,'.',color='Black',markersize=10)
ax.text(30.3,-29.8,'Durban')
# Add gridlines
ax.gridlines(draw_labels=True)
plt_fname_subset = 'EC_SouthernAfrica_SST_' + my_time + '.png'
fig1.savefig(plt_fname_subset,bbox_inches='tight')
plt.show()
sst_data.close()
os.remove(sst_data_file)
else:
#os.unlink(sst_data_file)
print('No sst data to plot')
plt.figure()
t = 'No OSTIA SST data for: ' + my_time
plt.text(0.3,0.5,t)
plt_fname = 'SouthernAfrica_SST_' + my_time + '.png'
plt_fname_subset = 'EC_SouthernAfrica_SST_' + my_time + '.png'
plt.savefig(plt_fname)
plt.savefig(plt_fname_subset)
plt.show()
# Download and plot forcast SST data
# Global analysis forcast model
Data_ID = 'cmems_mod_glo_phy-thetao_anfc_0.083deg_PT6H-i'
variables = ["thetao"]
Start_date = (datetime.now() - timedelta(2)).strftime('%Y-%m-%d')
End_date = (datetime.now() + timedelta(4)).strftime('%Y-%m-%d')
output_fname = 'Forcast_SST_SA_' + Start_date +'.nc'
depth = 0.49402499198913574
MAX_RETRIES = 3
RETRY_WAIT = 10
i = 0
while i < MAX_RETRIES:
try:
print('Attempting download of forcast data. Attempt No: ',str(i))
f_sst_data_file = copernicusmarine.subset(dataset_id=Data_ID,
username = username,
password = password,
minimum_longitude = min(Longitude),
maximum_longitude = max(Longitude),
minimum_latitude= min(Latitude),
maximum_latitude = max(Latitude),
start_datetime = Start_date,
end_datetime = End_date,
variables = variables,
minimum_depth=depth,
maximum_depth=depth,
output_filename = output_fname,
force_download=True)
break
except Exception as e:
print('Failed to download forecast data')
time.sleep(RETRY_WAIT)
i+=1
if os.path.exists(output_fname) == True:
f_sst_data = xr.open_dataset(f_sst_data_file)
f_sst_data = f_sst_data.squeeze()
fig2,ax = plt.subplots(3,2,figsize=(15, 10),subplot_kw={'projection': ccrs.PlateCarree()})
ax1 = ax[0,0]
ax2 = ax[0,1]
ax3 = ax[1,0]
ax4 = ax[1,1]
ax5 = ax[2,0]
ax6 = ax[2,1]
fig2.suptitle('Forcast SST',x=0.51,y=0.92, fontweight='bold')
#ax = ax1.add_subplot(1, 1, 1, projection=ccrs.PlateCarree())
ax1.set_title(str(np.datetime64(f_sst_data.time[0].values, 'D')))
f1_sst_plot = ax1.pcolor(f_sst_data.longitude,f_sst_data.latitude,f_sst_data.thetao[0,:,:],cmap='plasma')#, extend='both')
cax = fig2.add_axes([0.35, 0.86, 0.07, 0.01])
cbar = fig2.colorbar(f1_sst_plot, cax=cax, orientation='horizontal',label='$^o$C',extend='both')
cbar.set_label(label='$^o$C',fontweight='bold')
# Add coastline and land
ax1.coastlines(resolution='10m')
ax1.add_feature(cfeature.LAND, color='lightgray')
ax1.add_feature(cfeature.LAND, edgecolor='black', facecolor='lightgray')
#rivers = cfeature.NaturalEarthFeature('physical', 'rivers_lake_centerlines', '10m', edgecolor='blue', facecolor='none')
#ax.add_feature(rivers)
# Set the extent to cover Algoa Bay
ax1.set_extent([25.5, 32, -35, -29])
# Add transect
ax1.plot(transect_lons,transect_lats,color='black')
#ax.plot(Sundays[0],Sundays[1],'.',color='white',markersize=10)
#ax.plot(AB_60m[0],AB_60m[1],'.',color='white',markersize=10)
#ax.plot(AB_80m[0],AB_80m[1],'.',color='white',markersize=10)
ax1.plot(31, -29.87,'.',color='Black',markersize=10)
ax1.text(29.8,-29.8,'Durban')
# Add gridlines
g1 = ax1.gridlines(draw_labels=True)
g1.top_labels = False
g1.right_labels = False
#############################################################################################################################
#ax = ax1.add_subplot(1, 1, 1, projection=ccrs.PlateCarree())
ax2.set_title(str(np.datetime64(f_sst_data.time[4].values, 'D')))
f1_sst_plot = ax2.pcolor(f_sst_data.longitude,f_sst_data.latitude,f_sst_data.thetao[5,:,:],cmap='plasma')#, extend='both')
cax = fig2.add_axes([0.53, 0.86, 0.07, 0.01])
cbar = fig2.colorbar(f1_sst_plot, cax=cax, orientation='horizontal',label='$^o$C',extend='both')
cbar.set_label(label='$^o$C',fontweight='bold')
# Add coastline and land
ax2.coastlines(resolution='10m')
ax2.add_feature(cfeature.LAND, color='lightgray')
ax2.add_feature(cfeature.LAND, edgecolor='black', facecolor='lightgray')
#rivers = cfeature.NaturalEarthFeature('physical', 'rivers_lake_centerlines', '10m', edgecolor='blue', facecolor='none')
#ax.add_feature(rivers)
# Set the extent to cover Algoa Bay
ax2.set_extent([25.5, 32, -35, -29])
# Add transect
ax2.plot(transect_lons,transect_lats,color='black')
#ax.plot(Sundays[0],Sundays[1],'.',color='white',markersize=10)
#ax.plot(AB_60m[0],AB_60m[1],'.',color='white',markersize=10)
#ax.plot(AB_80m[0],AB_80m[1],'.',color='white',markersize=10)
ax2.plot(31, -29.87,'.',color='Black',markersize=10)
ax2.text(29.8,-29.8,'Durban')
# Add gridlines
g2 = ax2.gridlines(draw_labels=True)
g2.top_labels = False
g2.left_labels = False
############################################################################################################################
ax3.set_title(str(np.datetime64(f_sst_data.time[8].values, 'D')))
f1_sst_plot = ax3.pcolor(f_sst_data.longitude,f_sst_data.latitude,f_sst_data.thetao[8,:,:],cmap='plasma')#, extend='both')
cax = fig2.add_axes([0.35, 0.59, 0.07, 0.01])
cbar = fig2.colorbar(f1_sst_plot, cax=cax, orientation='horizontal',label='$^o$C',extend='both')
cbar.set_label(label='$^o$C',fontweight='bold')
# Add coastline and land
ax3.coastlines(resolution='10m')
ax3.add_feature(cfeature.LAND, color='lightgray')
ax3.add_feature(cfeature.LAND, edgecolor='black', facecolor='lightgray')
#rivers = cfeature.NaturalEarthFeature('physical', 'rivers_lake_centerlines', '10m', edgecolor='blue', facecolor='none')
#ax.add_feature(rivers)
# Set the extent to cover Algoa Bay
ax3.set_extent([25.5, 32, -35, -29])
# Add transect
ax3.plot(transect_lons,transect_lats,color='black')
#ax.plot(Sundays[0],Sundays[1],'.',color='white',markersize=10)
#ax.plot(AB_60m[0],AB_60m[1],'.',color='white',markersize=10)
#ax.plot(AB_80m[0],AB_80m[1],'.',color='white',markersize=10)
ax3.plot(31, -29.87,'.',color='Black',markersize=10)
ax3.text(29.8,-29.8,'Durban')
# Add gridlines
g3 = ax3.gridlines(draw_labels=True)
g3.top_labels = False
g3.right_labels = False
############################################################################################################################
ax4.set_title(str(np.datetime64(f_sst_data.time[12].values, 'D')))
f1_sst_plot = ax4.pcolor(f_sst_data.longitude,f_sst_data.latitude,f_sst_data.thetao[12,:,:],cmap='plasma')#, extend='both')
cax = fig2.add_axes([0.53, 0.59, 0.07, 0.01])
cbar = fig2.colorbar(f1_sst_plot, cax=cax, orientation='horizontal',label='$^o$C',extend='both')
cbar.set_label(label='$^o$C',fontweight='bold')
# Add coastline and land
ax4.coastlines(resolution='10m')
ax4.add_feature(cfeature.LAND, color='lightgray')
ax4.add_feature(cfeature.LAND, edgecolor='black', facecolor='lightgray')
#rivers = cfeature.NaturalEarthFeature('physical', 'rivers_lake_centerlines', '10m', edgecolor='blue', facecolor='none')
#ax.add_feature(rivers)
# Set the extent to cover Algoa Bay
ax4.set_extent([25.5, 32, -35, -29])
# Add transect
ax4.plot(transect_lons,transect_lats,color='black')
#ax.plot(Sundays[0],Sundays[1],'.',color='white',markersize=10)
#ax.plot(AB_60m[0],AB_60m[1],'.',color='white',markersize=10)
#ax.plot(AB_80m[0],AB_80m[1],'.',color='white',markersize=10)
ax4.plot(31, -29.87,'.',color='Black',markersize=10)
ax4.text(29.8,-29.8,'Durban')
# Add gridlines
g4 = ax4.gridlines(draw_labels=True)
g4.top_labels = False
g4.left_labels = False
#########################################################################################################################
ax5.set_title(str(np.datetime64(f_sst_data.time[16].values, 'D')))
f1_sst_plot = ax5.pcolor(f_sst_data.longitude,f_sst_data.latitude,f_sst_data.thetao[16,:,:],cmap='plasma')#, extend='both')
cax = fig2.add_axes([0.35, 0.315, 0.07, 0.01])
cbar = fig2.colorbar(f1_sst_plot, cax=cax, orientation='horizontal',label='$^o$C',extend='both')
cbar.set_label(label='$^o$C',fontweight='bold')
# Add coastline and land
ax5.coastlines(resolution='10m')
ax5.add_feature(cfeature.LAND, color='lightgray')
ax5.add_feature(cfeature.LAND, edgecolor='black', facecolor='lightgray')
#rivers = cfeature.NaturalEarthFeature('physical', 'rivers_lake_centerlines', '10m', edgecolor='blue', facecolor='none')
#ax.add_feature(rivers)
# Set the extent to cover Algoa Bay
ax5.set_extent([25.5, 32, -35, -29])
# Add transect
ax5.plot(transect_lons,transect_lats,color='black')
#ax.plot(Sundays[0],Sundays[1],'.',color='white',markersize=10)
#ax.plot(AB_60m[0],AB_60m[1],'.',color='white',markersize=10)
#ax.plot(AB_80m[0],AB_80m[1],'.',color='white',markersize=10)
ax5.plot(31, -29.87,'.',color='Black',markersize=10)
ax5.text(29.8,-29.8,'Durban')
# Add gridlines
g5 = ax5.gridlines(draw_labels=True)
g5.top_labels = False
g5.right_labels = False
###########################################################################################################################
ax6.axis('off')
plt.subplots_adjust(wspace=-0.7)
fcast_fname = 'Forecast_SST_' + Start_date + '.png'
fig2.savefig(fcast_fname,bbox_inches='tight')
else:
plt.figure()
t = 'No forcast SST data for: ' + Start_date
plt.text(0.3,0.5,t)
fcast_fname = 'Forecast_SST_' + Start_date + '.png'
plt.savefig(fcast_fname,bbox_inches='tight')
# Import modules for email notification
import smtplib
from email.mime.multipart import MIMEMultipart
from email.mime.text import MIMEText
from email.mime.base import MIMEBase
from email import encoders
def send_email(sender_email, sender_password, receiver_email, subject, message, files=[]):
# Setup the MIME
msg = MIMEMultipart()
msg['From'] = sender_email
msg['To'] = receiver_email
msg['Subject'] = subject
# Attach the message
msg.attach(MIMEText(message, 'plain'))
# Attach files if any
for file in files:
attachment = open(file, 'rb')
part = MIMEBase('application', 'octet-stream')
part.set_payload((attachment).read())
encoders.encode_base64(part)
part.add_header('Content-Disposition', f"attachment; filename= {file}")
msg.attach(part)
# Create SMTP session
session = smtplib.SMTP('smtp.gmail.com', 587) #use your smtp server details here
session.starttls() #enable security
session.login(sender_email, sender_password) #login with mail_id and password
# Send the email
text = msg.as_string()
session.sendmail(sender_email, receiver_email, text)
session.quit()
# Email details
reciever_email_list = ['[email protected]',
#
#reciever_email_list = ['[email protected]']
#receiver_email = reciever_email_list
subject = 'Latest SST Images'
message = 'OSTIA Level 4 SST images for Southern Africa and Forecast SST from Mercator global ocean'
files = [plt_fname, plt_fname_subset, fcast_fname] # List of file paths to attach
for i in range(len(reciever_email_list)):
send_email(sender_email, sender_password, reciever_email_list[i], subject, message, files)