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product_info.py
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product_info.py
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import calendar
import os
import json
from datetime import datetime as dt
from datetime import timedelta
from source_info import SourceInfo
import pandas as pd
from netCDF4 import Dataset
class ProductInfo:
def __init__(self):
sdir = os.path.abspath(os.path.dirname(__file__))
self.path2info = os.path.join(os.path.dirname(sdir), 'PRODUCT_INFO')
self.path_reformat_script = os.path.join(os.path.dirname(sdir), 'reformatting_file_cmems2_202211.sh')
self.product_name = ''
self.dataset_name = ''
self.pinfo = {}
self.dinfo = {}
self.modes = ['my', 'nrt']
self.basins = ['bal', 'blk', 'med']
self.levels = ['l3', 'l4']
self.dataset_types = ['optics', 'plankton', 'reflectance', 'transp']
self.sensors = ['olci', 'multi', 'gapfree-multi', 'multi-climatology']
self.dict_info = {}
self.start_my_dictionary()
self.start_nrt_dictionary()
self.MODE = 'UPLOAD' # UPLOAD, REFORMAT, NONE
self.params_slurm = {
'nodes': '1',
'ntasks': '1',
'p': 'octac',
'mail-type': 'BEGIN,END,FAIL',
'mail-user': '[email protected]'
}
# self.parameter_code = {
# 'plankton':{
# 'code': 'PLANKTON',
# 'parameter': 'Chlorophyll-a concentration and Phytoplankton Functional Types'
# },
# 'transp':{
# 'code': 'KD490',
# 'parameter': 'OLCI Diffuse Attenuation Coefficient at 490nm'
# },
# 'reflectance':{
# 'code': 'RRS',
# 'parameter': 'Remote Sensing Reflectance'
# },
# 'optics':{
# 'code': 'IOPs',
# 'parameter': 'Inherent Optical Properties'
# }
#
# }
def get_dataset_summary(self):
if self.dataset_name is not None:
path_summary = os.path.join(self.path2info, 'SUMMARY')
if not os.path.exists(path_summary):
os.mkdir(path_summary)
fsummary = os.path.join(path_summary, self.dataset_name + '_summary.json')
finvalid = os.path.join(path_summary, self.dataset_name + '_invalid.csv')
return fsummary, finvalid
return None
def get_dataset_name(self, mode, basin, level, dtype, sensor):
if sensor.lower() == 'gapfree_multi':
sensor = 'gapfree-multi'
res = '1km'
if sensor.lower() == 'olci':
res = '300m'
dataset_name = f'cmems_obs-oc_{basin.lower()}_bgc-{dtype.lower()}_{mode.lower()}_{level.lower()}-{sensor.lower()}-{res}_P1D'
try:
dinfo = self.dict_info[mode.lower()][basin.lower()][level.lower()][dtype.lower()][sensor.lower()]
except:
print(f'[ERROR] Dataset: {mode} {basin} {level} {dtype} {sensor} is not available')
return None, None
if dinfo['frequency'] == 'm':
dataset_name = dataset_name.replace('P1D', 'P1M')
if dinfo['dataset'] == dataset_name:
product_name = dinfo['product']
return product_name, dataset_name
def get_product_name(self, mode, basin, level):
dproduct = self.dict_info[mode.lower()][basin.lower()][level.lower()]
for dtype in dproduct.keys():
for sensor in dproduct[dtype].keys():
product_name = dproduct[dtype][sensor]['product']
return product_name
##GETTERES
def get_dinfo_param(self, param):
if len(self.dinfo) == 0:
return None
if not param in self.dinfo.keys():
return None
return self.dinfo[param]
def get_region(self):
return self.get_dinfo_param('region')
def get_sensor(self):
return self.get_dinfo_param('sensor')
def get_level(self):
return self.get_dinfo_param('level')
def get_frequency(self):
return self.get_dinfo_param('frequency')
def get_number_expected_files_between_two_dates(self, start_date, end_date):
frequency = self.get_frequency()
if frequency is None:
return -1
if frequency.lower() == 'd':
return (end_date - start_date).days + 1
elif frequency.lower() == 'm':
return ((end_date.year - start_date.year) * 12 + end_date.month - start_date.month) + 1
return -1
def get_expected_files_between_two_dates(self, start_date, end_date):
frequency = self.get_frequency()
if frequency is None:
return None
name_files = []
if frequency.lower() == 'd':
date_here = start_date
while date_here <= end_date:
date_here_str = date_here.strftime('%Y%m%d')
name_file = f'{date_here_str}_{self.dataset_name}.nc'
name_files.append(name_file)
date_here = date_here + timedelta(hours=24)
return name_files
def get_dtype(self):
return self.get_dinfo_param('dataset')
def get_sources(self):
if len(self.dinfo) == 0:
return None
try:
return self.dinfo['sources']
except:
return None
def get_sources_dt(self):
if len(self.dinfo) == 0:
return None
try:
return self.dinfo['sources_dt']
except:
return None
def get_reprocessing_cmd(self, mode):
if mode == 'NRT':
return self.get_dinfo_param('CMD_NRT_reprocessing')
if mode == 'DT':
return self.get_dinfo_param('CMD_DT_reprocessing')
def get_last_nrt_date(self):
datenow = dt.now().replace(hour=12, minute=0, second=0, microsecond=0)
sensor = self.get_sensor()
if sensor.lower() == 'multi':
date_dt = (datenow - timedelta(days=20)).replace(hour=23, minute=59, second=59)
if sensor.lower() == 'gapfree_multi':
date_dt = (datenow - timedelta(days=24)).replace(hour=23, minute=59, second=59)
if sensor.lower() == 'olci':
date_dt = (datenow - timedelta(days=8)).replace(hour=23, minute=59, second=59)
return date_dt
def check_dataset_namesin_dict(self):
check = True
for m in self.modes:
for b in self.basins:
for l in self.levels:
for d in self.dataset_types:
for s in self.sensors:
try:
dset = self.dict_info[m][b][l][d][s]
pname, dname = self.get_dataset_name(m, b, l, d, s)
if not dset['dataset'] == dname:
print('[ERROR] Error in the name of the dataset...')
check = False
except:
pass
return check
def set_product_info(self, product_name):
self.product_name = product_name
fproduct = os.path.join(self.path2info, product_name + '.json')
valid = False
if os.path.exists(fproduct):
f = open(fproduct, "r")
self.pinfo = json.load(f)
f.close()
valid = True
return valid
def get_product_info_file(self, product_name):
fproduct = os.path.join(self.path2info, product_name + '.json')
return fproduct
def set_dataset_info(self, product_name, dataset_name):
self.product_name = product_name
self.dataset_name = dataset_name
fproduct = os.path.join(self.path2info, product_name + '.json')
valid = False
if os.path.exists(fproduct):
f = open(fproduct, "r")
try:
self.pinfo = json.load(f)
if dataset_name in self.pinfo.keys():
self.dinfo = self.pinfo[dataset_name]
valid = True
else:
print(f'[ERROR] Dataset {dataset_name} is not available in: {fproduct}')
except:
print(f'[ERROR] JSON file {fproduct} is not valid, could not be parsed')
f.close()
else:
print(f'[ERROR] Product file {fproduct} does not exist')
return valid
def set_param(self, pinfo_out, param_name, param_value):
if pinfo_out is None:
pinfo_out = self.pinfo
pinfo_out[self.dataset_name][param_name] = param_value
return pinfo_out
def update_json(self, pinfo_out):
if pinfo_out is None:
pinfo_out = self.pinfo
fproduct = os.path.join(self.path2info, self.product_name + '.json')
fout = open(fproduct, 'w')
fout.write('{')
datasets = list(pinfo_out.keys())
for dataset in pinfo_out:
self.write_new_line(fout, f'"{dataset}":')
self.write_new_line(fout, '{')
keys = list(pinfo_out[dataset].keys())
for key in pinfo_out[dataset]:
val = pinfo_out[dataset][key]
if key == keys[-1]:
self.write_new_line(fout, f'"{key}":"{val}"')
else:
self.write_new_line(fout, f'"{key}":"{val}",')
if dataset == datasets[-1]:
self.write_new_line(fout, '}')
else:
self.write_new_line(fout, '},')
self.write_new_line(fout, '}')
fout.close()
def write_new_line(self, fout, newline):
fout.write('\n')
fout.write(newline)
def get_list_all_products(self):
product_names = []
for name in os.listdir(self.path2info):
if name.endswith('.json'):
name = name[:-5]
if name == 'SOURCES':
continue
if name not in product_names:
product_names.append(name)
return product_names
def get_list_all_datasets(self):
all_products = self.get_list_all_products()
product_names = None
dataset_names = None
for p in all_products:
product_names_here, dataset_names_here = self.get_list_datasets(p, None)
if product_names is None:
product_names = product_names_here
dataset_names = dataset_names_here
else:
product_names = product_names + product_names_here
dataset_names = dataset_names + dataset_names_here
return product_names, dataset_names
def get_list_datasets(self, product_name, frequency):
product_names = []
dataset_names = []
fproduct = os.path.join(self.path2info, product_name + '.json')
if os.path.exists(fproduct):
f = open(fproduct, "r")
pinfo = json.load(f)
f.close()
for dataset in pinfo.keys():
if not frequency is None:
if pinfo[dataset]['frequency'].lower() != frequency.lower():
continue
product_names.append(product_name)
dataset_names.append(dataset)
return product_names, dataset_names
def get_list_datasets_with_sensor(self, product_name, sensor, frequency):
product_names = []
dataset_names = []
fproduct = os.path.join(self.path2info, product_name + '.json')
if os.path.exists(fproduct):
f = open(fproduct, "r")
pinfo = json.load(f)
f.close()
for dataset in pinfo.keys():
if not frequency is None:
if not pinfo[dataset]['frequency'].lower() == frequency.lower():
continue
if pinfo[dataset]['sensor'].lower() == sensor.lower():
product_names.append(product_name)
dataset_names.append(dataset)
return product_names, dataset_names
def get_list_datasets_with_dataset(self, product_name, dtype, frequency):
product_names = []
dataset_names = []
fproduct = os.path.join(self.path2info, product_name + '.json')
if os.path.exists(fproduct):
f = open(fproduct, "r")
pinfo = json.load(f)
f.close()
for dataset in pinfo.keys():
if not frequency is None:
if pinfo[dataset]['frequency'].lower() != frequency.lower():
continue
if pinfo[dataset]['dataset'].lower() == dtype.lower():
product_names.append(product_name)
dataset_names.append(dataset)
return product_names, dataset_names
def get_list_datasets_params(self, mode, basin, level, dtype, sensor, frequency):
product_names = []
dataset_names = []
if mode is not None and basin is not None and level is not None and dtype is not None and sensor is not None:
product_name, dataset_name = self.get_dataset_name(mode, basin, level, dtype, sensor)
if product_name is not None and dataset_name is not None:
product_names.append(product_name)
dataset_names.append(dataset_name)
elif mode is not None and basin is not None and level is not None:
product_name = self.get_product_name(mode, basin, level)
if dtype is None and sensor is None:
product_names, dataset_names = self.get_list_datasets(product_name, frequency)
elif dtype is None and sensor is not None:
product_names, dataset_names = self.get_list_datasets_with_sensor(product_name, sensor, frequency)
elif dtype is not None and sensor is None:
product_names, dataset_names = self.get_list_datasets_with_dataset(product_name, dtype, frequency)
return product_names, dataset_names
def set_dataset_info_fromparam(self, mode, basin, level, dtype, sensor):
product_name, dataset_name = self.get_dataset_name(mode, basin, level, dtype, sensor)
self.set_dataset_info(product_name, dataset_name)
def get_tag_print(self):
if self.MODE == 'REFORMAT':
tagprint = '[WARNING]'
elif self.MODE == 'NONE':
tagprint = None
else:
tagprint = '[ERROR]'
return tagprint
def get_path_orig(self, year):
if len(self.dinfo) == 0:
return None
if year > 0:
path_orig = os.path.join(self.dinfo['path_origin'], dt(year, 1, 1).strftime('%Y'))
else:
path_orig = self.dinfo['path_origin']
if os.path.exists(path_orig):
return path_orig
else:
tagprint = self.get_tag_print()
if tagprint is not None:
print(f'{tagprint} Expected year path {path_orig} does not exist')
return None
def check_path_reformat(self):
if 'path_reformat' in self.dinfo.keys():
path = self.dinfo['path_reformat']
if os.path.exists(path) and os.path.isdir(path):
return path
else:
return None
return None
def get_file_path_orig_reformat(self, datehere):
tagprint = self.get_tag_print()
if 'path_reformat' in self.dinfo.keys():
path = self.dinfo['path_reformat']
name_file = self.dinfo['name_origin']
date_file_str = datehere.strftime(self.dinfo['format_date_origin'])
file_path = os.path.join(path, name_file.replace('DATE', date_file_str))
if not os.path.exists(file_path):
if tagprint is not None:
print(f'{tagprint} Expected file orig path {file_path} does not exist')
return None
return file_path
else:
return None
def get_file_path_orig_reformat_name(self, datehere):
if 'path_reformat' in self.dinfo.keys():
path = self.dinfo['path_reformat']
name_file = self.dinfo['name_origin']
date_file_str = datehere.strftime(self.dinfo['format_date_origin'])
file_path = os.path.join(path, name_file.replace('DATE', date_file_str))
return file_path
else:
return None
def get_file_path_orig(self, path, datehere):
tagprint = self.get_tag_print()
if path is None:
path = self.get_path_orig(datehere.year)
if path is None:
return None
path_jday = os.path.join(path, datehere.strftime('%j'))
if not os.path.exists(path_jday):
if tagprint is not None:
print(f'{tagprint} Expected jday path {path_jday} does not exist')
return None
name_file = self.dinfo['name_origin']
date_file_str = datehere.strftime(self.dinfo['format_date_origin'])
file_path = os.path.join(path_jday, name_file.replace('DATE', date_file_str))
if not os.path.exists(file_path):
if tagprint is not None:
print(f'{tagprint} Expected file orig path {file_path} does not exist')
return None
return file_path
# same as get_file_path_orig, but it returns the complete path despite of it doen't exist, it's used for checking
# also it is used for reformat.
def get_file_path_orig_name(self, path, datehere):
if path is None:
path = os.path.join(self.dinfo['path_origin'], datehere.strftime('%Y'))
path_jday = os.path.join(path, datehere.strftime('%j'))
name_file = self.dinfo['name_origin']
date_file_str = datehere.strftime(self.dinfo['format_date_origin'])
file_path = os.path.join(path_jday, name_file.replace('DATE', date_file_str))
return file_path
def check_processed_files(self, datehere):
path = os.path.join(self.dinfo['path_origin'], datehere.strftime('%Y'))
path_jday = os.path.join(path, datehere.strftime('%j'))
nTot = -1
nAva = 0
missing_files = []
if not 'names_processed' in self.dinfo:
return path_jday, nTot, nAva, missing_files
names_processed = self.dinfo['names_processed']
names_list = names_processed.split(',')
nTot = len(names_list)
if not os.path.exists(path_jday):
missing_files = names_list
return path_jday, nTot, nAva, missing_files
for name_file in names_list:
name_file = name_file.strip()
date_file_str = datehere.strftime(self.dinfo['format_date_processed'])
file_path = os.path.join(path_jday, name_file.replace('DATE', date_file_str))
if os.path.exists(file_path):
nAva = nAva + 1
else:
missing_files.append(name_file)
return path_jday, nTot, nAva, missing_files
def get_session_id(self, mode, date):
sinfo = SourceInfo('202207')
if self.dinfo['sensor'] == 'MULTI' or self.dinfo['sensor'] == 'gapfree_multi':
sinfo.start_source('MULTI')
sinfo.get_last_session_id(mode, self.dinfo['region'], date)
return sinfo.sessionid
def get_size_file_path_orig_olci_monthly(self, path, datehere, dtype):
tamgb = -1
if path is None:
path = self.get_path_orig(datehere.year)
if path is None:
return tamgb
y = datehere.year
m = datehere.month
day_ini = 1
day_fin = calendar.monthrange(y, m)[1]
date_here_ini = dt(y, m, day_ini)
date_here_fin = dt(y, m, day_fin)
ystr = date_here_ini.strftime('%Y')
dini = date_here_ini.strftime('%j')
dfin = date_here_fin.strftime('%j')
datestr = f'{ystr}{dini}{dfin}'
if dtype == 'rrs':
varlist = ['rrs400', 'rrs412_5', 'rrs442_5', 'rrs490', 'rrs510', 'rrs560', 'rrs620', 'rrs665', 'rrs673_75',
'rrs681_25', 'rrs708_75']
if dtype == 'plankton':
varlist = ['chl']
if dtype == 'transp':
varlist = ['kd490']
area = self.dinfo['region'].lower()
if area == 'blk':
area = 'bs'
tam = 0
for var in varlist:
fname = f'O{datestr}-{var}_monthly-{area}-fr.nc'
fpath = os.path.join(path, fname)
if os.path.exists(fpath):
tam = tam + os.path.getsize(fpath)
else:
tamgb = -1
break
if tam > 0:
tamkb = tam / 1024
tammb = tamkb / 1024
tamgb = tammb / 1024
print('final: ', tamgb)
return tamgb
def get_size_file_path_orig_olci(self, path, datehere, dtype):
tagprint = self.get_tag_print()
tamgb = -1
if path is None:
path = self.get_path_orig(datehere.year)
if path is None:
return tamgb
path_jday = os.path.join(path, datehere.strftime('%j'))
if not os.path.exists(path_jday):
if tagprint is not None:
print(f'{tagprint} Expected jday path {path_jday} does not exist')
return tamgb
if dtype == 'rrs':
varlist = ['rrs400', 'rrs412_5', 'rrs442_5', 'rrs490', 'rrs510', 'rrs560', 'rrs620', 'rrs665', 'rrs673_75',
'rrs681_25', 'rrs708_75']
if dtype == 'plankton':
varlist = ['chl']
if dtype == 'transp':
varlist = ['kd490']
datestr = datehere.strftime('%Y%j')
area = self.dinfo['region'].lower()
if area == 'blk':
area = 'bs'
tam = 0
for var in varlist:
fname = f'O{datestr}-{var}-{area}-fr.nc'
fpath = os.path.join(path_jday, fname)
# print(fpath,'->',os.path.exists(fpath))
if os.path.exists(fpath):
tam = tam + os.path.getsize(fpath)
# print(tam)
else:
tamgb = -1
break
if tam > 0:
tamkb = tam / 1024
tammb = tamkb / 1024
tamgb = tammb / 1024
print('final: ', tamgb)
return tamgb
def get_size_file_path_orig_multi(self, path, datehere, dtype):
tagprint = self.get_tag_print()
tamgb = -1
if path is None:
path = self.get_path_orig(datehere.year)
if path is None:
return tamgb
path_jday = os.path.join(path, datehere.strftime('%j'))
if not os.path.exists(path_jday):
if tagprint is not None:
print(f'{tagprint} Expected jday path {path_jday} does not exist')
return tamgb
if dtype == 'rrs':
varlist = ['rrs412', 'rrs443', 'rrs490', 'rrs510', 'rrs555', 'rrs670']
if dtype == 'plankton':
varlist = ['chl', 'pft']
if dtype == 'gapfree':
varlist = ['chl_interp']
if dtype == 'transp':
varlist = ['kd490']
if dtype == 'optics':
varlist = ['adg443', 'bbp443', 'aph443']
datestr = datehere.strftime('%Y%j')
area = self.dinfo['region'].lower()
if area == 'blk':
area = 'bs'
tam = 0
for var in varlist:
fname = f'X{datestr}-{var}-{area}-hr.nc'
fpath = os.path.join(path_jday, fname)
# print(fpath,'->',os.path.exists(fpath))
if os.path.exists(fpath):
tam = tam + os.path.getsize(fpath)
# print(tam)
else:
tamgb = -1
break
if tam > 0:
tamkb = tam / 1024
tammb = tamkb / 1024
tamgb = tammb / 1024
print('final: ', tamgb)
return tamgb
def get_size_file_path_orig_multi_monthly(self, path, datehere, dtype):
tamgb = -1
if path is None:
path = self.get_path_orig(datehere.year)
if path is None:
return tamgb
y = datehere.year
m = datehere.month
day_ini = 1
day_fin = calendar.monthrange(y, m)[1]
date_here_ini = dt(y, m, day_ini)
date_here_fin = dt(y, m, day_fin)
ystr = date_here_ini.strftime('%Y')
dini = date_here_ini.strftime('%j')
dfin = date_here_fin.strftime('%j')
datestr = f'{ystr}{dini}{dfin}'
if dtype == 'rrs':
varlist = ['rrs400', 'rrs412_5', 'rrs442_5', 'rrs490', 'rrs510', 'rrs560', 'rrs620', 'rrs665', 'rrs673_75',
'rrs681_25', 'rrs708_75']
if dtype == 'plankton':
varlist = ['chl']
if dtype == 'transp':
varlist = ['kd490']
area = self.dinfo['region'].lower()
if area == 'blk':
area = 'bs'
tam = 0
for var in varlist:
fname = f'X{datestr}-{var}_monthly-{area}-hr.nc'
fpath = os.path.join(path, fname)
if os.path.exists(fpath):
tam = tam + os.path.getsize(fpath)
else:
tamgb = -1
break
if tam > 0:
tamkb = tam / 1024
tammb = tamkb / 1024
tamgb = tammb / 1024
print('final: ', tamgb)
return tamgb
def get_list_file_path_orig(self, start_date, end_date):
filelist = []
for y in range(start_date.year, end_date.year + 1):
path_ref = self.get_path_orig(y)
for m in range(start_date.month, end_date.month + 1):
day_ini = 1
day_fin = calendar.monthrange(y, m)[1]
if m == start_date.month:
day_ini = start_date.day
if m == end_date.month:
day_fin = end_date.day
for d in range(day_ini, day_fin + 1):
datehere = dt(y, m, d)
file = self.get_file_path_orig(path_ref, datehere)
filelist.append(file)
return filelist
def check_size_file_orig(self, start_date, end_date, opt, verbose):
df = pd.DataFrame(columns=['N', 'Size'], index=list(range(1, 13)))
for m in list(range(1, 13)):
df.loc[m, 'N'] = 0
df.loc[m, 'Size'] = 0
for y in range(start_date.year, end_date.year + 1):
path_ref = self.get_path_orig(y)
mini = 1
mfin = 12
if y == start_date.year:
mini = start_date.month
if y == end_date.year:
mfin = end_date.month
for m in range(mini, mfin + 1):
if verbose:
print(f'[INFO] Checking size for year: {y} Month: {m}')
day_ini = 1
day_fin = calendar.monthrange(y, m)[1]
if m == start_date.month and y == start_date.year:
day_ini = start_date.day
if m == end_date.month and y == end_date.year:
day_fin = end_date.day
for d in range(day_ini, day_fin + 1):
datehere = dt(y, m, d)
print(datehere)
if opt is None:
file = self.get_file_path_orig(path_ref, datehere)
if not file is None and os.path.exists(file):
df.loc[m, 'N'] = df.loc[m, 'N'] + 1
tbytes = os.path.getsize(file)
tkb = tbytes / 1024
tmb = tkb / 1024
tgb = tmb / 1024
df.loc[m, 'Size'] = df.loc[m, 'Size'] + tgb
else:
if opt == 'olci_rrs':
tgb = self.get_size_file_path_orig_olci(path_ref, datehere, 'rrs')
elif opt == 'olci_plankton':
tgb = self.get_size_file_path_orig_olci(path_ref, datehere, 'plankton')
elif opt == 'olci_transp':
tgb = self.get_size_file_path_orig_olci(path_ref, datehere, 'transp')
elif opt == 'multi_rrs':
tgb = self.get_size_file_path_orig_multi(path_ref, datehere, 'rrs')
elif opt == 'multi_plankton':
tgb = self.get_size_file_path_orig_multi(path_ref, datehere, 'plankton')
elif opt == 'multi_transp':
tgb = self.get_size_file_path_orig_multi(path_ref, datehere, 'transp')
elif opt == 'multi_optics':
tgb = self.get_size_file_path_orig_multi(path_ref, datehere, 'optics')
elif opt == 'multi_gapfree':
tgb = self.get_size_file_path_orig_multi(path_ref, datehere, 'gapfree')
if tgb > 0:
df.loc[m, 'N'] = df.loc[m, 'N'] + 1
df.loc[m, 'Size'] = df.loc[m, 'Size'] + tgb
return df
def check_size_file_orig_monthly(self, start_date, end_date, opt, verbose):
df = pd.DataFrame(columns=['N', 'Size'], index=list(range(1, 13)))
for m in list(range(1, 13)):
df.loc[m, 'N'] = 0
df.loc[m, 'Size'] = 0
for y in range(start_date.year, end_date.year + 1):
path_ref = self.get_path_orig(y)
mini = 1
mfin = 12
if y == start_date.year:
mini = start_date.month
if y == end_date.year:
mfin = end_date.month
for m in range(mini, mfin + 1):
if verbose:
print(f'[INFO] Checking size for year: {y} Month: {m}')
datehere = dt(y, m, 15)
if opt == 'olci_m_rrs':
tgb = self.get_size_file_path_orig_olci_monthly(path_ref, datehere, 'rrs')
elif opt == 'olci_m_plankton':
tgb = self.get_size_file_path_orig_olci_monthly(path_ref, datehere, 'plankton')
elif opt == 'olci_m_transp':
tgb = self.get_size_file_path_orig_olci_monthly(path_ref, datehere, 'transp')
elif opt == 'multi_m_plankton':
tgb = self.get_size_file_path_orig_multi_monthly(path_ref, datehere, 'plankton')
if tgb > 0:
df.loc[m, 'N'] = df.loc[m, 'N'] + 1
df.loc[m, 'Size'] = df.loc[m, 'Size'] + tgb
return df
# Note: dinfo must be defined
def check_sources(self, date):
if len(self.dinfo) == 0:
return
if self.dinfo['sensor'] == 'MULTI':
self.check_multi_sources(date)
def check_multi_sources(self, date):
print('checking multi sources...')
def delete_list_file_path_orig(self, start_date, end_date, verbose):
for y in range(start_date.year, end_date.year + 1):
mini = 1
mfin = 12
if y == start_date.year:
mini = start_date.month
if y == end_date.year:
mfin = end_date.month
path_ref = self.get_path_orig(y)
for m in range(mini, mfin + 1):
day_ini = 1
day_fin = calendar.monthrange(y, m)[1]
if m == start_date.month:
day_ini = start_date.day
if m == end_date.month:
day_fin = end_date.day
for d in range(day_ini, day_fin + 1):
datehere = dt(y, m, d)
if verbose:
print('----------------------------------------------------------------------------------')
print(f'[INFO] Checking date: {datehere}')
file = self.get_file_path_orig(path_ref, datehere)
if not file is None and os.path.exists(file):
if verbose:
print(f'[INFO] Removing file {file}')
os.remove(file)
def delete_list_file_path_orig_monthly(self, start_date, end_date, verbose):
for y in range(start_date.year, end_date.year + 1):
path_ref = self.get_path_orig(y)
mini = 1
mfin = 12
if y == start_date.year:
mini = start_date.month
if y == end_date.year:
mfin = end_date.month
for m in range(mini, mfin + 1):
datehere = dt(y, m, 15)
if verbose:
print('----------------------------------------------------------------------------------')
print(f'[INFO] Checking date: {datehere}')
file = self.get_file_path_orig_monthly(path_ref, datehere)
if not file is None and os.path.exists(file):
if verbose:
print(f'[INFO] Removing file {file}')
os.remove(file)
def get_file_path_orig_monthly(self, path, datehere):
if path is None:
path = self.get_path_orig(datehere.year)
if path is None:
return None
name_file = self.dinfo['name_origin']
yearstr = datehere.strftime('%Y')
dateinimonth = datehere.replace(day=1).strftime('%j')
last_day = calendar.monthrange(datehere.year, datehere.month)[1]
datefinmonth = datehere.replace(day=last_day).strftime('%j')
date_file_str = f'{yearstr}{dateinimonth}{datefinmonth}'
file_path = os.path.join(path, name_file.replace('DATE', date_file_str))
if not os.path.exists(file_path):
print(f'[ERROR] Expected file orig path {file_path} does not exist')
return None
return file_path
def get_file_path_orig_monthly_noreformat(self, path, datehere):
if path is None:
path = self.get_path_orig(datehere.year)
if path is None:
return None
name_file = self.dinfo['name_origin']
name_file = name_file.replace('CMEMS2_', '')
yearstr = datehere.strftime('%Y')
dateinimonth = datehere.replace(day=1).strftime('%j')
last_day = calendar.monthrange(datehere.year, datehere.month)[1]
datefinmonth = datehere.replace(day=last_day).strftime('%j')
date_file_str = f'{yearstr}{dateinimonth}{datefinmonth}'
file_path = os.path.join(path, name_file.replace('DATE', date_file_str))
if not os.path.exists(file_path):
print(f'[ERROR] Expected file orig path {file_path} does not exist')
return None
return file_path
def get_list_file_path_orig_monthly(self, start_date, end_date):
filelist = []
for y in range(start_date.year, end_date.year + 1):
path_ref = self.get_path_orig(y)
for m in range(start_date.month, end_date.month + 1):
datehere = dt(y, m, 15)
file = self.get_file_path_orig_monthly(path_ref, datehere)
filelist.append(file)
return filelist
def get_file_path_orig_climatology(self, path, datehere, reformatted, noneifnoexist):
key_name_origin = 'name_origin'
if not reformatted:
key_name_origin = 'name_origin_noreformatted'
if path is None:
path_month = os.path.join(self.dinfo['path_origin'], datehere.strftime('%m'))
if os.path.exists(path_month):
path = path_month
else:
path = self.dinfo['path_origin']
if not os.path.exists(path):
if noneifnoexist:
print(f'[ERROR] Expected orig path {path} does not exist')
return None
name_file = self.dinfo[key_name_origin]
date_file_str = datehere.strftime(self.dinfo['format_date_origin'])
file_path = os.path.join(path, name_file.replace('DATE', date_file_str))
if not os.path.exists(file_path):
if noneifnoexist:
print(f'[ERROR] Expected file orig path {file_path} does not exist')
return None
return file_path
def get_global_atts(self):
file_attributes = self.dinfo['global_attributes_file']
if not os.path.exists(file_attributes):
return None
import configparser
try:
options = configparser.ConfigParser()
options.read(file_attributes)
except:
return None
if not options.has_section('GLOBAL_ATTRIBUTES'):
return None
at_dict = dict(options['GLOBAL_ATTRIBUTES'])
return at_dict
def get_remote_path(self, year, month):
dtref = dt(year, month, 1)
rpath = os.path.join(os.sep, self.product_name, self.dinfo['remote_dataset'] + self.dinfo['remote_dataset_tag'])
sdir = os.path.join(dtref.strftime('%Y'), dtref.strftime('%m'))
return rpath, sdir
def get_remote_path_monthly(self, year):
dtref = dt(year, 1, 1)
rpath = os.path.join(os.sep, self.product_name, self.dinfo['remote_dataset'] + self.dinfo['remote_dataset_tag'])
sdir = os.path.join(dtref.strftime('%Y'))
return rpath, sdir
def get_remote_path_normal(self, year, month):
dtref = dt(year, month, 1)
rpath = os.path.join(os.sep, 'Core', self.product_name, self.dinfo['remote_dataset'])
sdir = os.path.join(dtref.strftime('%Y'), dtref.strftime('%m'))
return rpath, sdir
def get_remote_path_monthly_normal(self, year):
dtref = dt(year, 1, 1)
rpath = os.path.join(os.sep, 'Core', self.product_name, self.dinfo['remote_dataset'])
sdir = os.path.join(dtref.strftime('%Y'))
return rpath, sdir
def get_remote_path_climatology(self):
rpath = os.path.join(os.sep, self.product_name, self.dinfo['remote_dataset'] + self.dinfo['remote_dataset_tag'])
sdir = ''
return rpath, sdir
def get_tagged_dataset(self):
tagged_dataset = self.dinfo['remote_dataset'] + self.dinfo['remote_dataset_tag']
return tagged_dataset
def check_file(self, file):
if file is None:
print(f'[ERROR] File variable is none')
return False
if not os.path.exists(file):
print(f'[ERROR] File {file} does not exist')
return False
try:
nc = Dataset(file)
check = False
if nc.title == self.dataset_name and nc.cmems_product_id == self.product_name:
check = True
else:
if nc.title != self.dataset_name:
print(f'[ERROR] title atribute: {nc.title} should be equal to dataset name: {self.dataset_name}')
if nc.cmems_product_id == self.product_name:
print(
f'[ERROR] cmems_product_id {nc.cmems_product_id} should be equal to product name {self.product_name}')
if check:
variable_list = self.dinfo['variables'].split(',')
for variable in variable_list:
if not variable in nc.variables:
print(f'[ERROR] Variable: {variable} was not found in reformatted file: {file}')
check = False
nc.close()
return check
except:
return False
def get_remote_file_name(self, datehere):
name_file_base = self.dinfo['remote_file_name']
date_file_str = datehere.strftime(self.dinfo['remote_date_format'])
name = name_file_base.replace('DATE', date_file_str)
return name
def get_remote_file_name_monthly(self, datehere):
name_file_base = self.dinfo['remote_file_name']
dateinimonth = datehere.replace(day=1)
last_day = calendar.monthrange(datehere.year, datehere.month)[1]
datefinmonth = datehere.replace(day=last_day)
date_file_ini_str = dateinimonth.strftime(self.dinfo['remote_date_format'])
date_file_fin_str = datefinmonth.strftime(self.dinfo['remote_date_format'])
name = name_file_base.replace('DATE1', date_file_ini_str)