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update_modis_nrt.py
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update_modis_nrt.py
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# https://git.earthdata.nasa.gov/projects/LPDUR
# wavelength: https://ladsweb.modaps.eosdis.nasa.gov/missions-and-measurements/viirs/
# viirs ftp: https://e4ftl01.cr.usgs.gov/VIIRS/VNP09GA.001/2021.07.05/
# https://ladsweb.modaps.eosdis.nasa.gov/missions-and-measurements/products/VNP09GA/
# GRID
# (check hHHvVV) https://ladsweb.modaps.eosdis.nasa.gov/search/order/3/MOD09GA--61/2022-08-04..2022-08-06/DB/Tile:H10V3
# hHHvVV GRID: https://modis-land.gsfc.nasa.gov/MODLAND_grid.html
# MODIS
# https://www.earthdatascience.org/courses/use-data-open-source-python/hierarchical-data-formats-hdf/open-MODIS-hdf4-files-python/
# LAADS DATA SOURCE: https://ladsweb.modaps.eosdis.nasa.gov/archive/allData/
# check in APP: https://eo4wildfire.users.earthengine.app/view/wildfire-monitor-eu
# MODIS NRT Products
# https://nrt3.modaps.eosdis.nasa.gov/
# https://search.earthdata.nasa.gov/portal/idn/search/granules?p=C1426416980-LANCEMODIS&pg[0][v]=f&pg[0][qt]=2022-08-30T00%3A00%3A00.000Z%2C2022-08-30T23%3A59%3A59.999Z&pg[0][gsk]=-start_date&q=MOD02QKM_6.1NRT&tl=1661864157.365!3!!&lat=-82.0249693470098&long=-129.234375&zoom=0
# https://www.earthdata.nasa.gov/learn/find-data/near-real-time/viirs
# https://www.earthdata.nasa.gov/learn/find-data/near-real-time/modis
import os
import datetime as dt
import time, subprocess
from datetime import datetime, timedelta
from genericpath import isfile
from pathlib import Path
import shutil
from pandas import date_range
from easydict import EasyDict as edict
import numpy as np
from LaadsDataHandler.laads_client import LaadsClient
import xarray as xr
import rioxarray as rxr
from prettyprinter import pprint
import ee
ee.Initialize()
def download_data_by_hhvv(julian_day, year, hh_list=['10', '11'], vv_list =['03']):
url_part = f"{collection_id}/{products_id}/{year}/{julian_day}/"
for hh in hh_list:
for vv in vv_list:
print(f"\njulian_day: {julian_day}， h{hh}v{vv}")
print("-----------------------------------------------------------")
if products_id in ['VNP09GA_NRT']:
# VNP09GA_NRT
command = "wget -e robots=off -m -np -R .html,.tmp -nH --cut-dirs=5 " + \
f"\"https://ladsweb.modaps.eosdis.nasa.gov/archive/allData/{url_part}\" \
-A \"VNP09GA_NRT.A"+str(year)+f"{julian_day}.h{hh}v{vv}.001.*.h5\" --header \"Authorization: Bearer emhhb3l1dGltOmVtaGhiM2wxZEdsdFFHZHRZV2xzTG1OdmJRPT06MTYyNjQ0MTQyMTphMzhkYTcwMzc5NTg1M2NhY2QzYjY2NTU0ZWFkNzFjMGEwMTljMmJj\" \
-P {dataPath}"
if products_id in ['MOD09GA']:
# MOD09GA NRT from LANCE
# MOD09GA.A2022246.h00v08.061.2022247021401.NRT.hdf
command = "wget -e robots=off -m -np -R .html,.tmp -nH --cut-dirs=5 " + \
f"\"https://nrt3.modaps.eosdis.nasa.gov/api/v2/content/archives/allData/{url_part}\" \
-A \"{products_id}.A"+str(year)+f"{julian_day}.h{hh}v{vv}.061.*.NRT.hdf\" --header \"Authorization: Bearer emhhb3l1dGltOmVtaGhiM2wxZEdsdFFHZHRZV2xzTG1OdmJRPT06MTYyNjQ0MTQyMTphMzhkYTcwMzc5NTg1M2NhY2QzYjY2NTU0ZWFkNzFjMGEwMTljMmJj\" \
-P {dataPath}"
print(command)
save_url = f"{dataPath}/{url_part}"
print(f"\nsaved to: {save_url}")
# if not os.path.exists(save_url):
os.system(command)
def convert_hdf_to_geotiff(inDir, outDir, SOURCE):
fileList = [file for file in os.listdir(inDir) if file.endswith(SOURCE.format) and file.startswith(SOURCE.products_id)] # Search for .h5 files in current directory
# fileList = [file for file in os.listdir(inDir) if file.endswith('.hdf') and file.startswith('MOD09GA')] # Search for .h5 files in current directory
pprint(fileList)
for file in fileList:
filename = file[:-4]
print(filename)
# Open just the bands that you want to process
desired_bands = SOURCE.BANDS
modis_bands = rxr.open_rasterio(inDir / f"{filename}.hdf",
masked=True,
variable=desired_bands
).squeeze()
outDir.mkdir(exist_ok=True)
modis_bands.rio.reproject("EPSG:4326").rio.to_raster(outDir / f"{filename}.tif")
def viirs_preprocessing_and_upload(dataPath, FOLDER, SOURCE):
# CRS optimization and cloud optimization
if os.path.exists(dataPath / "COG"):
shutil.rmtree(dataPath / 'COG')
if not os.path.exists(dataPath / "COG"):
os.makedirs(dataPath / 'COG')
inDir = dataPath / FOLDER
print(inDir)
if True:
julianDay_list = [folder for folder in os.listdir(str(inDir)) if folder != ".DS_Store"]
for date in julianDay_list:
outDir = dataPath / 'COG'
print(f"outDir: {outDir}")
if SOURCE.products_id == "VNP09GA":
# convert_h5_to_cog(inDir=inDir / date, outDir=outDir, SOURCE=SOURCE)
convert_hdf_to_geotiff(inDir=inDir / date, outDir=outDir, SOURCE=SOURCE)
if SOURCE.products_id == "MOD09GA":
convert_hdf_to_geotiff(inDir=inDir / date, outDir=outDir, SOURCE=SOURCE)
# upload to Gcloud
fileList = [file for file in os.listdir(dataPath / "COG") if file[-4:] == ".tif"]
pprint(fileList)
dstList = []
for file in fileList:
# crs_cloud_optimization(url)
url = dataPath / "COG" / file
print(url)
filename = file[:-4].replace(".", "_")
# if is not available in gee, then upload
if(ee.ImageCollection(f"users/{USER}/{SOURCE.eeImgColName}")
.filter(ee.Filter.eq("system:index", filename)).size().getInfo() == 0):
rprjDir = Path(f"{os.path.split(url)[0]}_rprj")
if not os.path.exists(rprjDir): os.makedirs(rprjDir)
dst_url = rprjDir / f"{filename}.tif"
tmp_url = rprjDir / f"{filename}_tmp.tif"
# os.system(f"gdalwarp {url} {tmp_url} -t_srs EPSG:4326 -r bilinear -ts 1200 1200 -dstnodata 0")
# os.system(f"gdal_translate {tmp_url} {dst_url} -co TILED=YES -co COPY_SRC_OVERVIEWS=YES -co COMPRESS=LZW")
os.system(f"gdal_translate {url} {dst_url} -co TILED=YES -co COPY_SRC_OVERVIEWS=YES -co COMPRESS=LZW")
if isfile(tmp_url): os.remove(tmp_url)
os.system(f"gsutil -m cp -r {dst_url} {gs_dir}/")
os.system(f"earthengine upload image --force --asset_id={VIIRS_NRT_ImgCol}/{filename} {gs_dir}/{filename}.tif")
dstList.append(filename)
else:
print(f"{filename}: [already in GEE!]")
return dstList
def update_modis_in_gee_for(julian_day):
# Download from Lance
if True:
# North America
if not os.path.exists(tmpPath / str(julian_day)):
os.mkdir(tmpPath / str(julian_day))
download_data_by_hhvv(julian_day, year, hh_list=hh_list_na, vv_list =vv_list_na)
# Europe
download_data_by_hhvv(julian_day, year, hh_list=hh_list_eu, vv_list =vv_list_eu)
if False: # Download or Not
date_ndays = (dt.datetime.strptime(date, '%Y-%m-%d') - dt.datetime.strptime(date[:4] + '-01-01', '%Y-%m-%d')).days + 1
julian_today=date_ndays
print(f"julian_today: {julian_today}\n")
laads_client = LaadsClient()
laads_client.query_filelist_with_date_range_and_area_of_interest(date, products_id=[products_id], collection_id=collection_id, data_path=f'{dataPath}/{FOLDER}', julian_day=str(date_ndays))
laads_client.download_files_to_local_based_on_filelist(date, products_id=[products_id], collection_id=collection_id, data_path=f'{dataPath}/{FOLDER}', julian_day=str(date_ndays))
fileList = viirs_preprocessing_and_upload(dataPath, FOLDER, SOURCE)
pprint(fileList)
# fileList = [
# "VNP09GA_NRT_A2021200_h10v03_001",
# "VNP09GA_NRT_A2021200_h11v03_001",
# ]
''' set time_start property after being uploaded '''
time.sleep(60*10) # wait 10-min for all data uploading finished.
response = subprocess.getstatusoutput(f"earthengine ls users/{USER}/{eeImgColName}")
asset_list = response[1].replace("projects/earthengine-legacy/assets/", "").split("\n")
# delete older data if julian_day < julian_today - 5)
lance_date = dt.date.today() - dt.date(year, 1, 1)
julian_today = lance_date.days + 1
for asset_id in asset_list:
filename = os.path.split(asset_id)[-1]
julian_day = eval(filename.split("_")[1][-3:]) # may need to be changed for different products
if julian_day < julian_today - 5: # if julian date is smaller than (julian_today - 5)
os.system(f"earthengine rm {asset_id}")
print(f"{filename} {date} [deleted!]")
# set time_start property after being uploaded
for filename in fileList:
asset_id = f"users/{USER}/{eeImgColName}/{filename}"
julian_day = eval(filename.split("_")[1][5:])
standard_date = datetime(year, 1, 1) + timedelta(days=julian_day-1)
standard_date = standard_date.strftime("%Y-%m-%d")
if asset_id in asset_list:
print(filename, standard_date)
os.system(f'earthengine asset set --time_start {standard_date} {asset_id}')
if __name__ == "__main__":
# # 1km vs. 500m --> "M5", "M7", "M10" vs. "I1", "I2", "I3"
# # 500m: "M3", "M4", "I1", "I2", "I3", "M11", "QF2"
# # 1km: "M3", "M4", "M5", "M7", "M10", "M11", "QF2"
# # "Blue", "Green", "Red", "NIR", "SWIR1", "SWIR2", "BitMask"
# BANDS = ["M3", "M4", "M5", "M7", "M10", "M11", "QF2"]
# North America
hh_list_na = ['08', '09', '10', '11', '12', '13', '14']
vv_list_na = ['02', '03', '04', '05']
# European Union
hh_list_eu = ['17', '18', '19', '20', '21', '22', '23']
vv_list_eu = ['02', '03', '04', '05']
''' Configuration '''
CFG = {
'VNP09GA': {
"products_id": "VNP09GA",
"collection_id": '5000',
"eeImgColName": "VIIRS_NRT",
"format": '.h5',
"BANDS": ["M3", "M4", "M5", "M7", "M10", "M11", "QF2"]
},
'VNP09_NRT': {
"products_id": "VNP09_NRT",
"collection_id": '5000',
"eeImgColName": "VIIRS_NRT",
"format": '.hdf',
"BANDS": [
"375m Surface Reflectance Band I1",
"375m Surface Reflectance Band I2",
"375m Surface Reflectance Band I1"
]
},
'MOD09GA': {
"products_id": "MOD09GA",
"collection_id": '61',
"eeImgColName": "MODIS_NRT",
"format": '.hdf',
"BANDS": [
"sur_refl_b01_1",
"sur_refl_b02_1",
# "sur_refl_b03_1",
# "sur_refl_b04_1",
"sur_refl_b07_1"
]
},
'MOD02HKM': {
"products_id": "MOD02HKM",
"collection_id": '61',
"eeImgColName": "MODIS_NRT",
"format": '.hdf',
"BANDS": ["sur_refl_b01_1", "sur_refl_b02_1", "sur_refl_b03_1", "sur_refl_b04_1", "sur_refl_b07_1"]
},
}
# Configuration
USER = "omegazhangpzh"
SOURCE = edict(CFG['MOD09GA'])
year = 2022
products_id = SOURCE.products_id
collection_id = SOURCE.collection_id
eeImgColName = SOURCE.eeImgColName
BANDS=SOURCE.BANDS
# local path
# workspace = Path(os.getcwd())
workspace = Path("C:\eo4wildfire")
dataPath = workspace / eeImgColName
FOLDER = f"{collection_id}/{products_id}/{year}"
# cloud path
gs_dir = f"gs://sar4wildfire/{eeImgColName}" # GCP
VIIRS_NRT_ImgCol = f"users/{USER}/{eeImgColName}" # GEE
# remove downloaded data in the last run
# if True and os.path.exists(dataPath):
try:
shutil.rmtree(f"{str(dataPath)}/")
os.rmdir(dataPath)
except:
print("---------- failed to delete historical data !!! ---------------")
tmpPath = dataPath / FOLDER
if not os.path.exists(tmpPath): os.makedirs(tmpPath)
today = dt.date.today()
day_start = today + timedelta(days=-1)
while (True):
current_time = datetime.now().strftime("%H:%M:%S")
print(current_time)
if current_time[:2] == "09": # update at 04:00 AM
for date_time in date_range(day_start, today):
date = str(date_time)[:10]
lance_date = dt.datetime.strptime(date, "%Y-%m-%d").date() - dt.date(year, 1, 1)
julian_day = lance_date.days + 1
print("----------------------------------------------")
print(date, julian_day)
update_modis_in_gee_for(julian_day)
else:
time.sleep(60*60) # sleep 1h