def generate_ismn_nonref_validation():
"""Generate a validation where ISMN is used as non-reference"""
run = ValidationRun()
run.start_time = datetime.now(tzlocal())
run.save()
ref_c = DatasetConfiguration()
ref_c.validation = run
ref_c.dataset = Dataset.objects.get(short_name='C3S')
ref_c.version = DatasetVersion.objects.get(short_name='C3S_V202012')
ref_c.variable = DataVariable.objects.get(short_name='C3S_sm')
ref_c.save()
data_c = DatasetConfiguration()
data_c.validation = run
data_c.dataset = Dataset.objects.get(short_name='ISMN')
data_c.version = DatasetVersion.objects.get(short_name='ISMN_V20180712_MINI')
data_c.variable = DataVariable.objects.get(short_name='ISMN_soil_moisture')
data_c.save()
run.reference_configuration = ref_c
run.scaling_ref = ref_c
run.save()
return run
def test_val_finished(self):
test_datasets = [Dataset.objects.get(short_name=globals.C3S),
Dataset.objects.get(short_name=globals.ASCAT),
Dataset.objects.get(short_name=globals.SMAP),]
run = ValidationRun()
run.start_time = datetime.now(tzlocal())
run.end_time = datetime.now(tzlocal())
run.user = self.testuser
run.save()
for ds in test_datasets:
data_c = DatasetConfiguration()
data_c.validation = run
data_c.dataset = ds
data_c.version = ds.versions.first()
data_c.variable = ds.variables.first()
data_c.save()
ref_c = DatasetConfiguration()
ref_c.validation = run
ref_c.dataset = Dataset.objects.get(short_name='ISMN')
ref_c.version = DatasetVersion.objects.get(short_name='ISMN_V20180712_MINI')
ref_c.variable = DataVariable.objects.get(short_name='ISMN_soil_moisture')
ref_c.save()
run.reference_configuration = ref_c
run.scaling_ref = ref_c
run.save()
val_mail.send_val_done_notification(run)
self.check_outbox()
def generate_default_validation_triple_coll():
run = ValidationRun()
run.start_time = datetime.now(tzlocal())
run.save()
data_c = DatasetConfiguration()
data_c.validation = run
data_c.dataset = Dataset.objects.get(short_name='C3S')
data_c.version = DatasetVersion.objects.get(short_name='C3S_V201912')
data_c.variable = DataVariable.objects.get(short_name='C3S_sm')
data_c.save()
other_data_c = DatasetConfiguration()
other_data_c.validation = run
other_data_c.dataset = Dataset.objects.get(short_name='SMOS')
other_data_c.version = DatasetVersion.objects.get(short_name='SMOS_105_ASC')
other_data_c.variable = DataVariable.objects.get(short_name='SMOS_sm')
other_data_c.save()
ref_c = DatasetConfiguration()
ref_c.validation = run
ref_c.dataset = Dataset.objects.get(short_name='ISMN')
ref_c.version = DatasetVersion.objects.get(short_name='ISMN_V20180712_MINI')
ref_c.variable = DataVariable.objects.get(short_name='ISMN_soil_moisture')
ref_c.save()
run.reference_configuration = ref_c
run.scaling_ref = ref_c
run.tcol = True
run.bootstrap_tcol_cis = True
run.save()
return run
def test_validation_c3s_ismn(self):
run = ValidationRun()
run.start_time = datetime.now(tzlocal())
run.user = self.testuser
# set validation period
run.interval_from = datetime(1978, 1, 1, tzinfo=UTC)
run.interval_to = datetime(2018, 12, 31, tzinfo=UTC)
run.save()
data_c = DatasetConfiguration()
data_c.validation = run
data_c.dataset = Dataset.objects.get(short_name='C3S')
data_c.version = DatasetVersion.objects.get(short_name='C3S_V201812')
data_c.variable = DataVariable.objects.get(short_name='C3S_sm')
data_c.save() # object needs to be saved before m2m relationship can be used
data_c.filters.add(DataFilter.objects.get(name='FIL_C3S_FLAG_0'))
data_c.filters.add(DataFilter.objects.get(name='FIL_ALL_VALID_RANGE'))
data_c.save()
ref_c = DatasetConfiguration()
ref_c.validation = run
ref_c.dataset = Dataset.objects.get(short_name='ISMN')
ref_c.version = DatasetVersion.objects.get(short_name='ISMN_V20180712_MINI')
ref_c.variable = DataVariable.objects.get(short_name='ISMN_soil_moisture')
ref_c.save()
ref_c.filters.add(DataFilter.objects.get(name='FIL_ISMN_GOOD'))
ref_c.save()
run.reference_configuration = ref_c
run.scaling_ref = ref_c
run.save()
run_id = run.id
## run the validation
val.run_validation(run_id)
## wait until it's over (if necessary)
finished_run = ValidationRun.objects.get(pk=run_id)
timeout = 300 # seconds
wait_time = 5 # seconds
runtime = 0
while(finished_run.end_time is None):
assert runtime <= timeout, 'Validations are taking too long.'
sleep(wait_time)
runtime += wait_time
## TODO: check the results here
self.generic_result_check(finished_run)
self.delete_run(finished_run)
def test_validation_configuration(self):
run = ValidationRun()
run.start_time = now()
run.save()
dc = DatasetConfiguration()
dc.validation = run
dc.dataset = Dataset.objects.get(pk=1)
dc.version = DatasetVersion.objects.get(pk=1)
dc.variable = DataVariable.objects.get(pk=1)
dc.save()
run.reference_configuration = dc
run.scaling_ref = dc
run.save()
assert len(run.dataset_configurations.all()) == 1
assert run.reference_configuration
assert run.scaling_ref
def test_ds_config_order(self):
dataset_range = range(1, 6)
run = ValidationRun()
run.start_time = now()
run.save()
# create dataset configs in order of dataset ids
for i in dataset_range:
dc = DatasetConfiguration()
dc.validation = run
dc.dataset = Dataset.objects.get(pk=i)
dc.version = dc.dataset.versions.first()
dc.variable = dc.dataset.variables.first()
dc.save()
run.reference_configuration = dc
run.scaling_ref = dc
run.save()
# check that we can get the order of dataset configs from the validation run
orderorder = run.get_datasetconfiguration_order()
self.__logger.debug('Orig order {}'.format(orderorder))
assert orderorder
# check that they have the same order when using all()
for i, dsc in enumerate(run.dataset_configurations.all(), 1):
assert dsc.dataset.id == i
assert dsc.id == orderorder[i-1]
# randomly change the order
newworldorder = np.random.permutation(orderorder)
self.__logger.debug('New order {}'.format(newworldorder))
run.set_datasetconfiguration_order(newworldorder)
# make sure the new order is used
for i, dsc in enumerate(run.dataset_configurations.all(), 1):
self.__logger.debug('current id {}'.format(dsc.id))
assert dsc.id == newworldorder[i-1]
def test_doi(self):
infile = 'testdata/output_data/c3s_era5land.nc'
## generate test validation
val = ValidationRun()
val.start_time = timezone.now() - timedelta(days=1)
val.end_time = timezone.now()
val.user = self.testuser
val.save()
data_c = DatasetConfiguration()
data_c.validation = val
data_c.dataset = Dataset.objects.get(short_name='C3S')
data_c.version = DatasetVersion.objects.get(short_name='C3S_V201812')
data_c.variable = DataVariable.objects.get(short_name='C3S_sm')
data_c.save()
ref_c = DatasetConfiguration()
ref_c.validation = val
ref_c.dataset = Dataset.objects.get(short_name='ISMN')
ref_c.version = DatasetVersion.objects.get(short_name='ISMN_V20191211')
ref_c.variable = DataVariable.objects.get(
short_name='ISMN_soil_moisture')
ref_c.save()
val.reference_configuration = ref_c
val.scaling_ref = ref_c
val.save()
## set valid output file for validation
run_dir = path.join(OUTPUT_FOLDER, str(val.id))
mkdir_if_not_exists(run_dir)
shutil.copy(infile, path.join(run_dir, 'results.nc'))
set_outfile(val, run_dir)
val.save()
## test the publishing form
# no name given
val.user.first_name = None
val.user.last_name = None
form = PublishingForm(validation=val)
assert form
# only first name given
val.user.first_name = self.user_data['first_name']
form = PublishingForm(validation=val)
assert form
val.user.first_name = None
# only last name given
val.user.last_name = self.user_data['last_name']
form = PublishingForm(validation=val)
assert form
# first and last name given but not a real orcid id
val.user.first_name = self.user_data['first_name']
val.user.orcid = 'not a real orcid'
form = PublishingForm(validation=val)
caught_orcid_error = False
try:
assert form.pub_metadata
except:
caught_orcid_error = True
assert caught_orcid_error
# fix orcid
val.user.orcid = self.user_data['orcid']
## finally everything should be ok and we can use the form to generate the necessary metadata
form = PublishingForm(validation=val)
metadata = form.pub_metadata
## create a test doi on zenodo's sandbox service
get_doi_for_validation(val, metadata)
val = ValidationRun.objects.get(pk=val.id)
self.__logger.debug(val.doi)
assert val.doi
firstdoi = val.doi
## check that the DOI was correctly stored in the netcdf file
with netCDF4.Dataset(val.output_file.path, mode='r') as ds:
assert val.doi in ds.doi
form = PublishingForm(validation=val)
metadata = form.pub_metadata
## try to upload the same data with the same title again - it should work but yield a different doi
get_doi_for_validation(val, metadata)
val = ValidationRun.objects.get(pk=val.id)
self.__logger.debug(val.doi)
assert val.doi
assert val.doi != firstdoi
## check that the DOI was correctly stored in the netcdf file
with netCDF4.Dataset(val.output_file.path, mode='r') as ds:
assert val.doi in ds.doi