def get_last_granule(cls, container, dataset_id):
dsm_cli = DatasetManagementServiceClient()
dataset = dsm_cli.read_dataset(dataset_id)
cc = container
datastore_name = dataset.datastore_name
view_name = dataset.view_name
datastore = cc.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
opts = dict(
start_key = [dataset_id, {}],
end_key = [dataset_id, 0],
descending = True,
limit = 1,
include_docs = True
)
results = datastore.query_view(view_name,opts=opts)
if not results:
raise NotFound('A granule could not be located.')
if results[0] is None:
raise NotFound('A granule could not be located.')
doc = results[0].get('doc')
if doc is None:
return None
ts = float(doc.get('ts_create',0))
coverage = DatasetManagementService._get_coverage(dataset_id)
rdt = cls._coverage_to_granule(coverage,tdoa=slice(cls.get_relative_time(coverage,ts),None))
coverage.close(timeout=5)
return rdt.to_granule()
def get_last_granule(cls, container, dataset_id):
dsm_cli = DatasetManagementServiceClient()
dataset = dsm_cli.read_dataset(dataset_id)
cc = container
datastore_name = dataset.datastore_name
view_name = dataset.view_name
datastore = cc.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
opts = dict(
start_key = [dataset_id, {}],
end_key = [dataset_id, 0],
descending = True,
limit = 1,
include_docs = True
)
results = datastore.query_view(view_name,opts=opts)
if not results:
raise NotFound('A granule could not be located.')
if results[0] is None:
raise NotFound('A granule could not be located.')
doc = results[0].get('doc')
if doc is None:
return None
ts = float(doc.get('ts_create',0))
coverage = DatasetManagementService._get_coverage(dataset_id)
black_box = CoverageCraft(coverage)
black_box.sync_rdt_with_coverage(start_time=ts,end_time=None)
granule = black_box.to_granule()
return granule
def on_start(self):
super(ReplayProcess,self).on_start()
dsm_cli = DatasetManagementServiceClient()
self.dataset_id = self.CFG.get_safe('process.dataset_id', None)
self.delivery_format = self.CFG.get_safe('process.delivery_format',{})
self.start_time = self.CFG.get_safe('process.delivery_format.start_time', None)
self.end_time = self.CFG.get_safe('process.delivery_format.end_time', None)
if self.dataset_id is None:
raise BadRequest('dataset_id not specified')
self.dataset = dsm_cli.read_dataset(self.dataset_id)
def on_start(self):
'''
Starts the process
'''
super(ReplayProcess,self).on_start()
dsm_cli = DatasetManagementServiceClient()
self.dataset_id = self.CFG.get_safe('process.dataset_id', None)
self.delivery_format = self.CFG.get_safe('process.delivery_format',{})
self.start_time = self.CFG.get_safe('process.query.start_time', None)
self.end_time = self.CFG.get_safe('process.query.end_time', None)
self.parameters = self.CFG.get_safe('process.query.parameters',None)
self.publishing = Event()
if self.dataset_id is None:
raise BadRequest('dataset_id not specified')
self.dataset = dsm_cli.read_dataset(self.dataset_id)
class DatasetManagementIntTest(IonIntegrationTestCase):
def setUp(self):
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.resource_registry = ResourceRegistryServiceClient()
self.dataset_management = DatasetManagementServiceClient()
def test_dataset_crud(self):
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
tdom, sdom = time_series_domain()
dataset_id = self.dataset_management.create_dataset(name='ctd_dataset', parameter_dictionary_id=pdict_id, spatial_domain=sdom.dump(), temporal_domain=tdom.dump())
ds_obj = self.dataset_management.read_dataset(dataset_id)
self.assertEquals(ds_obj.name, 'ctd_dataset')
ds_obj.name = 'something different'
self.dataset_management.update_dataset(ds_obj)
ds_obj2 = self.dataset_management.read_dataset(dataset_id)
self.assertEquals(ds_obj.name, ds_obj2.name)
def test_context_crud(self):
context_ids = self.create_contexts()
context_id = context_ids.pop()
ctxt = self.dataset_management.read_parameter_context(context_id)
context = DatasetManagementService.get_coverage_parameter(ctxt)
self.assertIsInstance(context, CoverageParameterContext)
self.dataset_management.delete_parameter_context(context_id)
with self.assertRaises(NotFound):
self.dataset_management.read_parameter_context(context_id)
def test_pfunc_crud(self):
contexts, funcs = self.create_pfuncs()
context_ids = [context_id for context_id in contexts.itervalues()]
pdict_id = self.dataset_management.create_parameter_dictionary(name='functional_pdict', parameter_context_ids=context_ids, temporal_context='time')
self.addCleanup(self.dataset_management.delete_parameter_dictionary, pdict_id)
expr_id = funcs['CONDWAT_L1']
expr = self.dataset_management.read_parameter_function(expr_id)
func_class = DatasetManagementService.get_coverage_function(expr)
self.assertIsInstance(func_class, NumexprFunction)
def test_pdict_crud(self):
context_ids = self.create_contexts()
pdict_res_id = self.dataset_management.create_parameter_dictionary(name='pdict1', parameter_context_ids=context_ids, temporal_context='time')
pdict_contexts = self.dataset_management.read_parameter_contexts(parameter_dictionary_id=pdict_res_id, id_only=True)
pdict = DatasetManagementService.get_parameter_dictionary(pdict_res_id)
self.assertIsInstance(pdict, ParameterDictionary)
self.assertTrue('time_test' in pdict)
self.assertEquals(pdict.identifier, pdict_res_id)
self.assertEquals(set(pdict_contexts), set(context_ids))
self.dataset_management.delete_parameter_dictionary(parameter_dictionary_id=pdict_res_id)
with self.assertRaises(NotFound):
self.dataset_management.read_parameter_dictionary(parameter_dictionary_id=pdict_res_id)
def create_contexts(self):
context_ids = []
cond = ParameterContext(name='condictivity_test',
parameter_type='quantity',
value_encoding='float32',
units='1',
fill_value=0)
context_ids.append(self.dataset_management.create_parameter(cond))
pres = ParameterContext(name='pressure_test',
parameter_type='quantity',
value_encoding='float32',
units='Pa',
fill_value=0)
context_ids.append(self.dataset_management.create_parameter(pres))
sal = ParameterContext(name='salinity_test',
parameter_type='quantity',
value_encoding='float32',
units='psu',
fill_value=0)
context_ids.append(self.dataset_management.create_parameter(sal))
temp = ParameterContext(name='temp_test',
parameter_type='quantity',
value_encoding='float32',
units='degree_C',
fill_value=0)
context_ids.append(self.dataset_management.create_parameter(temp))
time_test = ParameterContext(name='time_test',
parameter_type='quantity',
value_encoding='float32',
units='seconds since 1970-01-01',
fill_value=0)
context_ids.append(self.dataset_management.create_parameter(time_test))
return context_ids
def create_pfuncs(self):
contexts = {}
funcs = {}
time_ = ParameterContext(name='TIME',
parameter_type='quantity',
value_encoding='float32',
units='seconds since 1900-01-01',
fill_value=0)
t_ctxt_id = self.dataset_management.create_parameter(time_)
contexts['TIME'] = t_ctxt_id
lat = ParameterContext(name='LAT',
parameter_type='sparse',
value_encoding='float32',
units='degrees_north',
fill_value=-9999.)
lat_ctxt_id = self.dataset_management.create_parameter(lat)
contexts['LAT'] = lat_ctxt_id
lon = ParameterContext(name='LON',
parameter_type="sparse",
value_encoding='float32',
units='degrees_east',
fill_value=-9999)
lon_ctxt_id = self.dataset_management.create_parameter(lon)
contexts['LON'] = lon_ctxt_id
# Independent Parameters
# Temperature - values expected to be the decimal results of conversion from hex
temp = ParameterContext(name='TEMPWAT_L0',
parameter_type='quantity',
value_encoding='float32',
units='deg_C')
temp_ctxt_id = self.dataset_management.create_parameter(temp)
contexts['TEMPWAT_L0'] = temp_ctxt_id
# Conductivity - values expected to be the decimal results of conversion from hex
cond = ParameterContext(name='CONDWAT_L0',
parameter_type='quantity',
value_encoding='float32',
units='S m-1')
cond_ctxt_id = self.dataset_management.create_parameter(cond)
contexts['CONDWAT_L0'] = cond_ctxt_id
# Pressure - values expected to be the decimal results of conversion from hex
press = ParameterContext(name='PRESWAT_L0',
parameter_type='quantity',
value_encoding='float32',
units='dbar')
press_ctxt_id = self.dataset_management.create_parameter(press)
contexts['PRESWAT_L0'] = press_ctxt_id
# Dependent Parameters
# TEMPWAT_L1 = (TEMPWAT_L0 / 10000) - 10
tl1_func = '(T / 10000) - 10'
tempwat_f = ParameterFunction(name='TEMPWAT_L1',
function_type=PFT.NUMEXPR,
function=tl1_func,
args=['T'])
expr_id = self.dataset_management.create_parameter_function(tempwat_f)
funcs['TEMPWAT_L1'] = expr_id
tl1_pmap = {'T': 'TEMPWAT_L0'}
tempL1 = ParameterContext(name='TEMPWAT_L1',
parameter_type='function',
parameter_function_id=expr_id,
parameter_function_map=tl1_pmap,
value_encoding='float32',
units='deg_C')
tempL1_ctxt_id = self.dataset_management.create_parameter(tempL1)
contexts['TEMPWAT_L1'] = tempL1_ctxt_id
# CONDWAT_L1 = (CONDWAT_L0 / 100000) - 0.5
cl1_func = '(C / 100000) - 0.5'
condwat_f = ParameterFunction(name='CONDWAT_L1',
function_type=PFT.NUMEXPR,
function=cl1_func,
args=['C'])
expr_id = self.dataset_management.create_parameter_function(condwat_f)
funcs['CONDWAT_L1'] = expr_id
cl1_pmap = {'C': 'CONDWAT_L0'}
condL1 = ParameterContext(name='CONDWAT_L1',
parameter_type='function',
parameter_function_id=expr_id,
parameter_function_map=cl1_pmap,
value_encoding='float32',
units='S m-1')
condL1_ctxt_id = self.dataset_management.create_parameter(condL1)
contexts['CONDWAT_L1'] = condL1_ctxt_id
# Equation uses p_range, which is a calibration coefficient - Fixing to 679.34040721
# PRESWAT_L1 = (PRESWAT_L0 * p_range / (0.85 * 65536)) - (0.05 * p_range)
pl1_func = '(P * p_range / (0.85 * 65536)) - (0.05 * p_range)'
preswat_f = ParameterFunction(name='PRESWAT_L1',
function_type=PFT.NUMEXPR,
function=pl1_func,
args=['P', 'p_range'])
expr_id = self.dataset_management.create_parameter_function(preswat_f)
funcs['PRESWAT_L1'] = expr_id
pl1_pmap = {'P': 'PRESWAT_L0', 'p_range': 679.34040721}
presL1 = ParameterContext(name='PRESWAT_L1',
parameter_type='function',
parameter_function_id=expr_id,
parameter_function_map=pl1_pmap,
value_encoding='float32',
units='dbar')
presL1_ctxt_id = self.dataset_management.create_parameter(presL1)
contexts['PRESWAT_L1'] = presL1_ctxt_id
# A magic function that may or may not exist actually forms the line below at runtime.
cond_f = ParameterFunction(name='condwat10',
function_type=PFT.NUMEXPR,
function='C*10',
args=['C'])
expr_id = self.dataset_management.create_parameter_function(cond_f)
cond10 = ParameterContext(name='c10',
parameter_type='function',
parameter_function_id=expr_id,
parameter_function_map={'C':'CONDWAT_L1'},
value_encoding='float32',
units='1')
cond10_id = self.dataset_management.create_parameter(cond10)
contexts['C10'] = cond10_id
# Density & practical salinity calucluated using the Gibbs Seawater library - available via python-gsw project:
# https://code.google.com/p/python-gsw/ & http://pypi.python.org/pypi/gsw/3.0.1
# PRACSAL = gsw.SP_from_C((CONDWAT_L1 * 10), TEMPWAT_L1, PRESWAT_L1)
owner = 'gsw'
sal_func = 'SP_from_C'
sal_arglist = ['C', 't', 'p']
pracsal_f = ParameterFunction(name='PRACSAL',
function_type=PFT.PYTHON,
owner=owner,
function=sal_func,
args=sal_arglist)
expr_id = self.dataset_management.create_parameter_function(pracsal_f)
funcs['PRACSAL'] = expr_id
sal_pmap = {'C': 'c10', 't': 'TEMPWAT_L1', 'p': 'PRESWAT_L1'}
sal_ctxt = ParameterContext(name='PRACSAL',
parameter_type='function',
parameter_function_id=expr_id,
parameter_function_map=sal_pmap,
value_encoding='float32',
units='g kg-1')
sal_ctxt_id = self.dataset_management.create_parameter(sal_ctxt)
contexts['PRACSAL'] = sal_ctxt_id
# absolute_salinity = gsw.SA_from_SP(PRACSAL, PRESWAT_L1, longitude, latitude)
# conservative_temperature = gsw.CT_from_t(absolute_salinity, TEMPWAT_L1, PRESWAT_L1)
# DENSITY = gsw.rho(absolute_salinity, conservative_temperature, PRESWAT_L1)
return contexts, funcs
def test_verify_contexts(self):
pdict_id = self.dataset_management.read_parameter_dictionary_by_name(name='ctd_parsed_param_dict', id_only=True)
pcontexts = self.dataset_management.read_parameter_contexts(parameter_dictionary_id=pdict_id)
for pcontext in pcontexts:
self.assertTrue('fill_value' in pcontext)
self.assertTrue('reference_urls' in pcontext)
self.assertTrue('internal_name' in pcontext)
self.assertTrue('display_name' in pcontext)
self.assertTrue('standard_name' in pcontext)
self.assertTrue('ooi_short_name' in pcontext)
self.assertTrue('description' in pcontext)
self.assertTrue('precision' in pcontext)
class TestDataProductManagementServiceIntegration(IonIntegrationTestCase):
def setUp(self):
# Start container
#print 'instantiating container'
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.dpsc_cli = DataProductManagementServiceClient(node=self.container.node)
self.rrclient = ResourceRegistryServiceClient(node=self.container.node)
self.damsclient = DataAcquisitionManagementServiceClient(node=self.container.node)
self.pubsubcli = PubsubManagementServiceClient(node=self.container.node)
self.ingestclient = IngestionManagementServiceClient(node=self.container.node)
self.process_dispatcher = ProcessDispatcherServiceClient()
self.dataset_management = DatasetManagementServiceClient()
self.unsc = UserNotificationServiceClient()
self.data_retriever = DataRetrieverServiceClient()
#------------------------------------------
# Create the environment
#------------------------------------------
datastore_name = CACHE_DATASTORE_NAME
self.db = self.container.datastore_manager.get_datastore(datastore_name)
self.stream_def_id = self.pubsubcli.create_stream_definition(name='SBE37_CDM')
self.process_definitions = {}
ingestion_worker_definition = ProcessDefinition(name='ingestion worker')
ingestion_worker_definition.executable = {
'module':'ion.processes.data.ingestion.science_granule_ingestion_worker',
'class' :'ScienceGranuleIngestionWorker'
}
process_definition_id = self.process_dispatcher.create_process_definition(process_definition=ingestion_worker_definition)
self.process_definitions['ingestion_worker'] = process_definition_id
self.pids = []
self.exchange_points = []
self.exchange_names = []
#------------------------------------------------------------------------------------------------
# First launch the ingestors
#------------------------------------------------------------------------------------------------
self.exchange_space = 'science_granule_ingestion'
self.exchange_point = 'science_data'
config = DotDict()
config.process.datastore_name = 'datasets'
config.process.queue_name = self.exchange_space
self.exchange_names.append(self.exchange_space)
self.exchange_points.append(self.exchange_point)
pid = self.process_dispatcher.schedule_process(self.process_definitions['ingestion_worker'],configuration=config)
log.debug("the ingestion worker process id: %s", pid)
self.pids.append(pid)
self.addCleanup(self.cleaning_up)
def cleaning_up(self):
for pid in self.pids:
log.debug("number of pids to be terminated: %s", len(self.pids))
try:
self.process_dispatcher.cancel_process(pid)
log.debug("Terminated the process: %s", pid)
except:
log.debug("could not terminate the process id: %s" % pid)
IngestionManagementIntTest.clean_subscriptions()
for xn in self.exchange_names:
xni = self.container.ex_manager.create_xn_queue(xn)
xni.delete()
for xp in self.exchange_points:
xpi = self.container.ex_manager.create_xp(xp)
xpi.delete()
def get_datastore(self, dataset_id):
dataset = self.dataset_management.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def test_create_data_product(self):
#------------------------------------------------------------------------------------------------
# create a stream definition for the data from the ctd simulator
#------------------------------------------------------------------------------------------------
parameter_dictionary_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict')
ctd_stream_def_id = self.pubsubcli.create_stream_definition(name='Simulated CTD data', parameter_dictionary_id=parameter_dictionary_id)
log.debug("Created stream def id %s" % ctd_stream_def_id)
#------------------------------------------------------------------------------------------------
# test creating a new data product w/o a stream definition
#------------------------------------------------------------------------------------------------
# Generic time-series data domain creation
tdom, sdom = time_series_domain()
dp_obj = IonObject(RT.DataProduct,
name='DP1',
description='some new dp',
temporal_domain = tdom.dump(),
spatial_domain = sdom.dump())
dp_obj.geospatial_bounds.geospatial_latitude_limit_north = 200.0
dp_obj.geospatial_bounds.geospatial_latitude_limit_south = 100.0
dp_obj.geospatial_bounds.geospatial_longitude_limit_east = 50.0
dp_obj.geospatial_bounds.geospatial_longitude_limit_west = 100.0
#------------------------------------------------------------------------------------------------
# Create a set of ParameterContext objects to define the parameters in the coverage, add each to the ParameterDictionary
#------------------------------------------------------------------------------------------------
dp_id = self.dpsc_cli.create_data_product( data_product= dp_obj,
stream_definition_id=ctd_stream_def_id)
self.dpsc_cli.activate_data_product_persistence(dp_id)
dp_obj = self.dpsc_cli.read_data_product(dp_id)
self.assertIsNotNone(dp_obj)
self.assertEquals(dp_obj.geospatial_point_center.lat, 150.0)
log.debug('Created data product %s', dp_obj)
#------------------------------------------------------------------------------------------------
# test creating a new data product with a stream definition
#------------------------------------------------------------------------------------------------
log.debug('Creating new data product with a stream definition')
dp_obj = IonObject(RT.DataProduct,
name='DP2',
description='some new dp',
temporal_domain = tdom.dump(),
spatial_domain = sdom.dump())
dp_id2 = self.dpsc_cli.create_data_product(dp_obj, ctd_stream_def_id)
self.dpsc_cli.activate_data_product_persistence(dp_id2)
log.debug('new dp_id = %s' % dp_id2)
#------------------------------------------------------------------------------------------------
#make sure data product is associated with stream def
#------------------------------------------------------------------------------------------------
streamdefs = []
streams, _ = self.rrclient.find_objects(dp_id2, PRED.hasStream, RT.Stream, True)
for s in streams:
log.debug("Checking stream %s" % s)
sdefs, _ = self.rrclient.find_objects(s, PRED.hasStreamDefinition, RT.StreamDefinition, True)
for sd in sdefs:
log.debug("Checking streamdef %s" % sd)
streamdefs.append(sd)
self.assertIn(ctd_stream_def_id, streamdefs)
# test reading a non-existent data product
log.debug('reading non-existent data product')
with self.assertRaises(NotFound):
dp_obj = self.dpsc_cli.read_data_product('some_fake_id')
# update a data product (tests read also)
log.debug('Updating data product')
# first get the existing dp object
dp_obj = self.dpsc_cli.read_data_product(dp_id)
# now tweak the object
dp_obj.description = 'the very first dp'
dp_obj.geospatial_bounds.geospatial_latitude_limit_north = 300.0
dp_obj.geospatial_bounds.geospatial_latitude_limit_south = 200.0
dp_obj.geospatial_bounds.geospatial_longitude_limit_east = 150.0
dp_obj.geospatial_bounds.geospatial_longitude_limit_west = 200.0
# now write the dp back to the registry
update_result = self.dpsc_cli.update_data_product(dp_obj)
# now get the dp back to see if it was updated
dp_obj = self.dpsc_cli.read_data_product(dp_id)
self.assertEquals(dp_obj.description,'the very first dp')
self.assertEquals(dp_obj.geospatial_point_center.lat, 250.0)
log.debug('Updated data product %s', dp_obj)
#test extension
extended_product = self.dpsc_cli.get_data_product_extension(dp_id)
self.assertEqual(dp_id, extended_product._id)
self.assertEqual(ComputedValueAvailability.PROVIDED,
extended_product.computed.product_download_size_estimated.status)
self.assertEqual(0, extended_product.computed.product_download_size_estimated.value)
self.assertEqual(ComputedValueAvailability.PROVIDED,
extended_product.computed.parameters.status)
#log.debug("test_create_data_product: parameters %s" % extended_product.computed.parameters.value)
# now 'delete' the data product
log.debug("deleting data product: %s" % dp_id)
self.dpsc_cli.delete_data_product(dp_id)
self.dpsc_cli.force_delete_data_product(dp_id)
# now try to get the deleted dp object
with self.assertRaises(NotFound):
dp_obj = self.dpsc_cli.read_data_product(dp_id)
# Get the events corresponding to the data product
ret = self.unsc.get_recent_events(resource_id=dp_id)
events = ret.value
for event in events:
log.debug("event time: %s" % event.ts_created)
self.assertTrue(len(events) > 0)
def test_data_product_stream_def(self):
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
ctd_stream_def_id = self.pubsubcli.create_stream_definition(name='Simulated CTD data', parameter_dictionary_id=pdict_id)
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
dp_obj = IonObject(RT.DataProduct,
name='DP1',
description='some new dp',
temporal_domain = tdom,
spatial_domain = sdom)
dp_id = self.dpsc_cli.create_data_product(data_product= dp_obj,
stream_definition_id=ctd_stream_def_id)
stream_def_id = self.dpsc_cli.get_data_product_stream_definition(dp_id)
self.assertEquals(ctd_stream_def_id, stream_def_id)
def test_activate_suspend_data_product(self):
#------------------------------------------------------------------------------------------------
# create a stream definition for the data from the ctd simulator
#------------------------------------------------------------------------------------------------
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
ctd_stream_def_id = self.pubsubcli.create_stream_definition(name='Simulated CTD data', parameter_dictionary_id=pdict_id)
log.debug("Created stream def id %s" % ctd_stream_def_id)
#------------------------------------------------------------------------------------------------
# test creating a new data product w/o a stream definition
#------------------------------------------------------------------------------------------------
# Construct temporal and spatial Coordinate Reference System objects
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
dp_obj = IonObject(RT.DataProduct,
name='DP1',
description='some new dp',
temporal_domain = tdom,
spatial_domain = sdom)
log.debug("Created an IonObject for a data product: %s" % dp_obj)
#------------------------------------------------------------------------------------------------
# Create a set of ParameterContext objects to define the parameters in the coverage, add each to the ParameterDictionary
#------------------------------------------------------------------------------------------------
dp_id = self.dpsc_cli.create_data_product(data_product= dp_obj,
stream_definition_id=ctd_stream_def_id)
#------------------------------------------------------------------------------------------------
# test activate and suspend data product persistence
#------------------------------------------------------------------------------------------------
self.dpsc_cli.activate_data_product_persistence(dp_id)
dp_obj = self.dpsc_cli.read_data_product(dp_id)
self.assertIsNotNone(dp_obj)
dataset_ids, _ = self.rrclient.find_objects(subject=dp_id, predicate=PRED.hasDataset, id_only=True)
if not dataset_ids:
raise NotFound("Data Product %s dataset does not exist" % str(dp_id))
self.get_datastore(dataset_ids[0])
# Check that the streams associated with the data product are persisted with
stream_ids, _ = self.rrclient.find_objects(dp_id,PRED.hasStream,RT.Stream,True)
for stream_id in stream_ids:
self.assertTrue(self.ingestclient.is_persisted(stream_id))
#--------------------------------------------------------------------------------
# Now get the data in one chunk using an RPC Call to start_retreive
#--------------------------------------------------------------------------------
replay_data = self.data_retriever.retrieve(dataset_ids[0])
self.assertIsInstance(replay_data, Granule)
log.debug("The data retriever was able to replay the dataset that was attached to the data product "
"we wanted to be persisted. Therefore the data product was indeed persisted with "
"otherwise we could not have retrieved its dataset using the data retriever. Therefore "
"this demonstration shows that L4-CI-SA-RQ-267 is satisfied: 'Data product management shall persist data products'")
data_product_object = self.rrclient.read(dp_id)
self.assertEquals(data_product_object.name,'DP1')
self.assertEquals(data_product_object.description,'some new dp')
log.debug("Towards L4-CI-SA-RQ-308: 'Data product management shall persist data product metadata'. "
" Attributes in create for the data product obj, name= '%s', description='%s', match those of object from the "
"resource registry, name='%s', desc='%s'" % (dp_obj.name, dp_obj.description,data_product_object.name,
data_product_object.description))
#------------------------------------------------------------------------------------------------
# test suspend data product persistence
#------------------------------------------------------------------------------------------------
self.dpsc_cli.suspend_data_product_persistence(dp_id)
self.dpsc_cli.force_delete_data_product(dp_id)
# now try to get the deleted dp object
with self.assertRaises(NotFound):
dp_obj = self.rrclient.read(dp_id)
class TestInstrumentManagementServiceIntegration(IonIntegrationTestCase):
def setUp(self):
# Start container
#print 'instantiating container'
self._start_container()
#container = Container()
#print 'starting container'
#container.start()
#print 'started container'
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.RR = ResourceRegistryServiceClient(node=self.container.node)
self.IMS = InstrumentManagementServiceClient(node=self.container.node)
self.IDS = IdentityManagementServiceClient(node=self.container.node)
self.PSC = PubsubManagementServiceClient(node=self.container.node)
self.DP = DataProductManagementServiceClient(node=self.container.node)
self.DAMS = DataAcquisitionManagementServiceClient(node=self.container.node)
self.DSC = DatasetManagementServiceClient(node=self.container.node)
self.PDC = ProcessDispatcherServiceClient(node=self.container.node)
self.RR2 = EnhancedResourceRegistryClient(self.RR)
print 'started services'
# @unittest.skip('this test just for debugging setup')
# def test_just_the_setup(self):
# return
@attr('EXT')
def test_resources_associations_extensions(self):
"""
create one of each resource and association used by IMS
to guard against problems in ion-definitions
"""
#stuff we control
instrument_agent_instance_id, _ = self.RR.create(any_old(RT.InstrumentAgentInstance))
instrument_agent_id, _ = self.RR.create(any_old(RT.InstrumentAgent))
instrument_model_id, _ = self.RR.create(any_old(RT.InstrumentModel))
instrument_device_id, _ = self.RR.create(any_old(RT.InstrumentDevice))
platform_agent_instance_id, _ = self.RR.create(any_old(RT.PlatformAgentInstance))
platform_agent_id, _ = self.RR.create(any_old(RT.PlatformAgent))
platform_device_id, _ = self.RR.create(any_old(RT.PlatformDevice))
platform_model_id, _ = self.RR.create(any_old(RT.PlatformModel))
sensor_device_id, _ = self.RR.create(any_old(RT.SensorDevice))
sensor_model_id, _ = self.RR.create(any_old(RT.SensorModel))
#stuff we associate to
data_producer_id, _ = self.RR.create(any_old(RT.DataProducer))
org_id, _ = self.RR.create(any_old(RT.Org))
#instrument_agent_instance_id #is only a target
#instrument_agent
self.RR.create_association(instrument_agent_id, PRED.hasModel, instrument_model_id)
self.RR.create_association(instrument_agent_instance_id, PRED.hasAgentDefinition, instrument_agent_id)
#instrument_device
self.RR.create_association(instrument_device_id, PRED.hasModel, instrument_model_id)
self.RR.create_association(instrument_device_id, PRED.hasAgentInstance, instrument_agent_instance_id)
self.RR.create_association(instrument_device_id, PRED.hasDataProducer, data_producer_id)
self.RR.create_association(instrument_device_id, PRED.hasDevice, sensor_device_id)
self.RR.create_association(org_id, PRED.hasResource, instrument_device_id)
instrument_model_id #is only a target
platform_agent_instance_id #is only a target
#platform_agent
self.RR.create_association(platform_agent_id, PRED.hasModel, platform_model_id)
self.RR.create_association(platform_agent_instance_id, PRED.hasAgentDefinition, platform_agent_id)
#platform_device
self.RR.create_association(platform_device_id, PRED.hasModel, platform_model_id)
self.RR.create_association(platform_device_id, PRED.hasAgentInstance, platform_agent_instance_id)
self.RR.create_association(platform_device_id, PRED.hasDevice, instrument_device_id)
platform_model_id #is only a target
#sensor_device
self.RR.create_association(sensor_device_id, PRED.hasModel, sensor_model_id)
self.RR.create_association(sensor_device_id, PRED.hasDevice, instrument_device_id)
sensor_model_id #is only a target
#create a parsed product for this instrument output
tdom, sdom = time_series_domain()
tdom = tdom.dump()
sdom = sdom.dump()
dp_obj = IonObject(RT.DataProduct,
name='the parsed data',
description='ctd stream test',
processing_level_code='Parsed_Canonical',
temporal_domain = tdom,
spatial_domain = sdom)
pdict_id = self.DSC.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
parsed_stream_def_id = self.PSC.create_stream_definition(name='parsed', parameter_dictionary_id=pdict_id)
data_product_id1 = self.DP.create_data_product(data_product=dp_obj, stream_definition_id=parsed_stream_def_id)
log.debug( 'new dp_id = %s', data_product_id1)
self.DAMS.assign_data_product(input_resource_id=instrument_device_id, data_product_id=data_product_id1)
def addInstOwner(inst_id, subject):
actor_identity_obj = any_old(RT.ActorIdentity, {"name": subject})
user_id = self.IDS.create_actor_identity(actor_identity_obj)
user_info_obj = any_old(RT.UserInfo)
user_info_id = self.IDS.create_user_info(user_id, user_info_obj)
self.RR.create_association(inst_id, PRED.hasOwner, user_id)
#Testing multiple instrument owners
addInstOwner(instrument_device_id, "/DC=org/DC=cilogon/C=US/O=ProtectNetwork/CN=Roger Unwin A254")
addInstOwner(instrument_device_id, "/DC=org/DC=cilogon/C=US/O=ProtectNetwork/CN=Bob Cumbers A256")
extended_instrument = self.IMS.get_instrument_device_extension(instrument_device_id)
self.assertEqual(instrument_device_id, extended_instrument._id)
self.assertEqual(len(extended_instrument.owners), 2)
self.assertEqual(extended_instrument.instrument_model._id, instrument_model_id)
# Verify that computed attributes exist for the extended instrument
self.assertIsInstance(extended_instrument.computed.firmware_version, ComputedFloatValue)
self.assertIsInstance(extended_instrument.computed.last_data_received_datetime, ComputedFloatValue)
self.assertIsInstance(extended_instrument.computed.last_calibration_datetime, ComputedFloatValue)
self.assertIsInstance(extended_instrument.computed.uptime, ComputedStringValue)
self.assertIsInstance(extended_instrument.computed.power_status_roll_up, ComputedIntValue)
self.assertIsInstance(extended_instrument.computed.communications_status_roll_up, ComputedIntValue)
self.assertIsInstance(extended_instrument.computed.data_status_roll_up, ComputedIntValue)
self.assertIsInstance(extended_instrument.computed.location_status_roll_up, ComputedIntValue)
log.debug("extended_instrument.computed: %s", extended_instrument.computed)
#check model
inst_model_obj = self.RR.read(instrument_model_id)
self.assertEqual(inst_model_obj.name, extended_instrument.instrument_model.name)
#check agent instance
inst_agent_instance_obj = self.RR.read(instrument_agent_instance_id)
self.assertEqual(inst_agent_instance_obj.name, extended_instrument.agent_instance.name)
#check agent
inst_agent_obj = self.RR.read(instrument_agent_id)
#compound assoc return list of lists so check the first element
self.assertEqual(inst_agent_obj.name, extended_instrument.instrument_agent[0].name)
#check platform device
plat_device_obj = self.RR.read(platform_device_id)
self.assertEqual(plat_device_obj.name, extended_instrument.platform_device.name)
extended_platform = self.IMS.get_platform_device_extension(platform_device_id)
self.assertEqual(1, len(extended_platform.instrument_devices))
self.assertEqual(instrument_device_id, extended_platform.instrument_devices[0]._id)
self.assertEqual(1, len(extended_platform.instrument_models))
self.assertEqual(instrument_model_id, extended_platform.instrument_models[0]._id)
#check sensor devices
self.assertEqual(1, len(extended_instrument.sensor_devices))
#check data_product_parameters_set
self.assertEqual(ComputedValueAvailability.PROVIDED,
extended_instrument.computed.data_product_parameters_set.status)
self.assertTrue( 'Parsed_Canonical' in extended_instrument.computed.data_product_parameters_set.value)
# the ctd parameters should include 'temp'
self.assertTrue( 'temp' in extended_instrument.computed.data_product_parameters_set.value['Parsed_Canonical'])
#none of these will work because there is no agent
self.assertEqual(ComputedValueAvailability.NOTAVAILABLE,
extended_instrument.computed.firmware_version.status)
# self.assertEqual(ComputedValueAvailability.NOTAVAILABLE,
# extended_instrument.computed.operational_state.status)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.power_status_roll_up.status)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.communications_status_roll_up.status)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.data_status_roll_up.status)
# self.assertEqual(StatusType.STATUS_OK,
# extended_instrument.computed.data_status_roll_up.value)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.location_status_roll_up.status)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.recent_events.status)
# self.assertEqual([], extended_instrument.computed.recent_events.value)
# cleanup
c = DotDict()
c.resource_registry = self.RR
self.RR2.pluck(instrument_agent_id)
self.RR2.pluck(instrument_model_id)
self.RR2.pluck(instrument_device_id)
self.RR2.pluck(platform_agent_id)
self.IMS.force_delete_instrument_agent(instrument_agent_id)
self.IMS.force_delete_instrument_model(instrument_model_id)
self.IMS.force_delete_instrument_device(instrument_device_id)
self.IMS.force_delete_platform_agent_instance(platform_agent_instance_id)
self.IMS.force_delete_platform_agent(platform_agent_id)
self.IMS.force_delete_platform_device(platform_device_id)
self.IMS.force_delete_platform_model(platform_model_id)
self.IMS.force_delete_sensor_device(sensor_device_id)
self.IMS.force_delete_sensor_model(sensor_model_id)
#stuff we associate to
self.RR.delete(data_producer_id)
self.RR.delete(org_id)
def test_custom_attributes(self):
"""
Test assignment of custom attributes
"""
instrument_model_id, _ = self.RR.create(any_old(RT.InstrumentModel,
{"custom_attributes":
{"favorite_color": "attr desc goes here"}
}))
instrument_device_id, _ = self.RR.create(any_old(RT.InstrumentDevice,
{"custom_attributes":
{"favorite_color": "red",
"bogus_attr": "should raise warning"
}
}))
self.IMS.assign_instrument_model_to_instrument_device(instrument_model_id, instrument_device_id)
# cleanup
self.IMS.force_delete_instrument_device(instrument_device_id)
self.IMS.force_delete_instrument_model(instrument_model_id)
def _get_datastore(self, dataset_id):
dataset = self.DSC.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def test_resource_state_save_restore(self):
# Create InstrumentModel
instModel_obj = IonObject(RT.InstrumentModel,
name='SBE37IMModel',
description="SBE37IMModel")
instModel_id = self.IMS.create_instrument_model(instModel_obj)
log.debug( 'new InstrumentModel id = %s ', instModel_id)
# Create InstrumentAgent
raw_config = StreamConfiguration(stream_name='raw', parameter_dictionary_name='ctd_raw_param_dict', records_per_granule=2, granule_publish_rate=5 )
parsed_config = StreamConfiguration(stream_name='parsed', parameter_dictionary_name='ctd_parsed_param_dict', records_per_granule=2, granule_publish_rate=5 )
instAgent_obj = IonObject(RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
driver_uri="http://sddevrepo.oceanobservatories.org/releases/seabird_sbe37smb_ooicore-0.0.1-py2.7.egg",
stream_configurations = [raw_config, parsed_config] )
instAgent_id = self.IMS.create_instrument_agent(instAgent_obj)
log.debug( 'new InstrumentAgent id = %s', instAgent_id)
self.IMS.assign_instrument_model_to_instrument_agent(instModel_id, instAgent_id)
# Create InstrumentDevice
log.debug('test_activateInstrumentSample: Create instrument resource to represent the SBE37 '
+ '(SA Req: L4-CI-SA-RQ-241) ')
instDevice_obj = IonObject(RT.InstrumentDevice,
name='SBE37IMDevice',
description="SBE37IMDevice",
serial_number="12345" )
instDevice_id = self.IMS.create_instrument_device(instrument_device=instDevice_obj)
self.IMS.assign_instrument_model_to_instrument_device(instModel_id, instDevice_id)
log.debug("test_activateInstrumentSample: new InstrumentDevice id = %s (SA Req: L4-CI-SA-RQ-241) ",
instDevice_id)
port_agent_config = {
'device_addr': CFG.device.sbe37.host,
'device_port': CFG.device.sbe37.port,
'process_type': PortAgentProcessType.UNIX,
'binary_path': "port_agent",
'port_agent_addr': 'localhost',
'command_port': CFG.device.sbe37.port_agent_cmd_port,
'data_port': CFG.device.sbe37.port_agent_data_port,
'log_level': 5,
'type': PortAgentType.ETHERNET
}
instAgentInstance_obj = IonObject(RT.InstrumentAgentInstance, name='SBE37IMAgentInstance',
description="SBE37IMAgentInstance",
port_agent_config = port_agent_config)
instAgentInstance_id = self.IMS.create_instrument_agent_instance(instAgentInstance_obj,
instAgent_id,
instDevice_id)
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
spdict_id = self.DSC.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
parsed_stream_def_id = self.PSC.create_stream_definition(name='parsed', parameter_dictionary_id=spdict_id)
rpdict_id = self.DSC.read_parameter_dictionary_by_name('ctd_raw_param_dict', id_only=True)
raw_stream_def_id = self.PSC.create_stream_definition(name='raw', parameter_dictionary_id=rpdict_id)
#-------------------------------
# Create Raw and Parsed Data Products for the device
#-------------------------------
dp_obj = IonObject(RT.DataProduct,
name='the parsed data',
description='ctd stream test',
temporal_domain = tdom,
spatial_domain = sdom)
data_product_id1 = self.DP.create_data_product(data_product=dp_obj,
stream_definition_id=parsed_stream_def_id)
log.debug( 'new dp_id = %s', data_product_id1)
self.DAMS.assign_data_product(input_resource_id=instDevice_id, data_product_id=data_product_id1)
self.DP.activate_data_product_persistence(data_product_id=data_product_id1)
# Retrieve the id of the OUTPUT stream from the out Data Product
stream_ids, _ = self.RR.find_objects(data_product_id1, PRED.hasStream, None, True)
log.debug( 'Data product streams1 = %s', stream_ids)
# Retrieve the id of the OUTPUT stream from the out Data Product
dataset_ids, _ = self.RR.find_objects(data_product_id1, PRED.hasDataset, RT.Dataset, True)
log.debug( 'Data set for data_product_id1 = %s', dataset_ids[0])
self.parsed_dataset = dataset_ids[0]
#create the datastore at the beginning of each int test that persists data
dp_obj = IonObject(RT.DataProduct,
name='the raw data',
description='raw stream test',
temporal_domain = tdom,
spatial_domain = sdom)
data_product_id2 = self.DP.create_data_product(data_product=dp_obj,
stream_definition_id=raw_stream_def_id)
log.debug( 'new dp_id = %s', str(data_product_id2))
self.DAMS.assign_data_product(input_resource_id=instDevice_id, data_product_id=data_product_id2)
self.DP.activate_data_product_persistence(data_product_id=data_product_id2)
# spin up agent
self.IMS.start_instrument_agent_instance(instrument_agent_instance_id=instAgentInstance_id)
self.addCleanup(self.IMS.stop_instrument_agent_instance,
instrument_agent_instance_id=instAgentInstance_id)
#wait for start
instance_obj = self.IMS.read_instrument_agent_instance(instAgentInstance_id)
gate = ProcessStateGate(self.PDC.read_process,
instance_obj.agent_process_id,
ProcessStateEnum.RUNNING)
self.assertTrue(gate.await(30), "The instrument agent instance (%s) did not spawn in 30 seconds" %
instance_obj.agent_process_id)
# take snapshot of config
snap_id = self.IMS.save_resource_state(instDevice_id, "xyzzy snapshot")
snap_obj = self.RR.read_attachment(snap_id, include_content=True)
print "Saved config:"
print snap_obj.content
#modify config
instance_obj.driver_config["comms_config"] = "BAD_DATA"
self.RR.update(instance_obj)
#restore config
self.IMS.restore_resource_state(instDevice_id, snap_id)
instance_obj = self.RR.read(instAgentInstance_id)
self.assertNotEqual("BAD_DATA", instance_obj.driver_config["comms_config"])
self.DP.delete_data_product(data_product_id1)
self.DP.delete_data_product(data_product_id2)
def test_agent_instance_config(self):
"""
Verify that agent configurations are being built properly
"""
clients = DotDict()
clients.resource_registry = self.RR
clients.pubsub_management = self.PSC
clients.dataset_management = self.DSC
pconfig_builder = PlatformAgentConfigurationBuilder(clients)
iconfig_builder = InstrumentAgentConfigurationBuilder(clients)
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
org_id = self.RR2.create(any_old(RT.Org))
inst_startup_config = {'startup': 'config'}
required_config_keys = [
'org_name',
'device_type',
'agent',
'driver_config',
'stream_config',
'startup_config',
'alarm_defs',
'children']
def verify_instrument_config(config, device_id):
for key in required_config_keys:
self.assertIn(key, config)
self.assertEqual('Org_1', config['org_name'])
self.assertEqual(RT.InstrumentDevice, config['device_type'])
self.assertIn('driver_config', config)
driver_config = config['driver_config']
expected_driver_fields = {'process_type': ('ZMQPyClassDriverLauncher',),
}
for k, v in expected_driver_fields.iteritems():
self.assertIn(k, driver_config)
self.assertEqual(v, driver_config[k])
self.assertEqual
self.assertEqual({'resource_id': device_id}, config['agent'])
self.assertEqual(inst_startup_config, config['startup_config'])
self.assertIn('stream_config', config)
for key in ['alarm_defs', 'children']:
self.assertEqual({}, config[key])
def verify_child_config(config, device_id, inst_device_id=None):
for key in required_config_keys:
self.assertIn(key, config)
self.assertEqual('Org_1', config['org_name'])
self.assertEqual(RT.PlatformDevice, config['device_type'])
self.assertEqual({'process_type': ('ZMQPyClassDriverLauncher',)}, config['driver_config'])
self.assertEqual({'resource_id': device_id}, config['agent'])
self.assertIn('stream_config', config)
if None is inst_device_id:
for key in ['alarm_defs', 'children', 'startup_config']:
self.assertEqual({}, config[key])
else:
for key in ['alarm_defs', 'startup_config']:
self.assertEqual({}, config[key])
self.assertIn(inst_device_id, config['children'])
verify_instrument_config(config['children'][inst_device_id], inst_device_id)
def verify_parent_config(config, parent_device_id, child_device_id, inst_device_id=None):
for key in required_config_keys:
self.assertIn(key, config)
self.assertEqual('Org_1', config['org_name'])
self.assertEqual(RT.PlatformDevice, config['device_type'])
self.assertEqual({'process_type': ('ZMQPyClassDriverLauncher',)}, config['driver_config'])
self.assertEqual({'resource_id': parent_device_id}, config['agent'])
self.assertIn('stream_config', config)
for key in ['alarm_defs', 'startup_config']:
self.assertEqual({}, config[key])
self.assertIn(child_device_id, config['children'])
verify_child_config(config['children'][child_device_id], child_device_id, inst_device_id)
rpdict_id = self.DSC.read_parameter_dictionary_by_name('ctd_raw_param_dict', id_only=True)
raw_stream_def_id = self.PSC.create_stream_definition(name='raw', parameter_dictionary_id=rpdict_id)
#todo: create org and figure out which agent resource needs to get assigned to it
def _make_platform_agent_structure(agent_config=None):
if None is agent_config: agent_config = {}
# instance creation
platform_agent_instance_obj = any_old(RT.PlatformAgentInstance)
platform_agent_instance_obj.agent_config = agent_config
platform_agent_instance_id = self.IMS.create_platform_agent_instance(platform_agent_instance_obj)
# agent creation
raw_config = StreamConfiguration(stream_name='raw', parameter_dictionary_name='ctd_raw_param_dict', records_per_granule=2, granule_publish_rate=5 )
platform_agent_obj = any_old(RT.PlatformAgent, {"stream_configurations":[raw_config]})
platform_agent_id = self.IMS.create_platform_agent(platform_agent_obj)
# device creation
platform_device_id = self.IMS.create_platform_device(any_old(RT.PlatformDevice))
# data product creation
dp_obj = any_old(RT.DataProduct, {"temporal_domain":tdom, "spatial_domain": sdom})
dp_id = self.DP.create_data_product(data_product=dp_obj, stream_definition_id=raw_stream_def_id)
self.DAMS.assign_data_product(input_resource_id=platform_device_id, data_product_id=dp_id)
self.DP.activate_data_product_persistence(data_product_id=dp_id)
# assignments
self.RR2.assign_platform_agent_instance_to_platform_device(platform_agent_instance_id, platform_device_id)
self.RR2.assign_platform_agent_to_platform_agent_instance(platform_agent_id, platform_agent_instance_id)
self.RR2.assign_platform_device_to_org_with_has_resource(platform_agent_instance_id, org_id)
return platform_agent_instance_id, platform_agent_id, platform_device_id
def _make_instrument_agent_structure(agent_config=None):
if None is agent_config: agent_config = {}
# instance creation
instrument_agent_instance_obj = any_old(RT.InstrumentAgentInstance, {"startup_config": inst_startup_config})
instrument_agent_instance_obj.agent_config = agent_config
instrument_agent_instance_id = self.IMS.create_instrument_agent_instance(instrument_agent_instance_obj)
# agent creation
raw_config = StreamConfiguration(stream_name='raw', parameter_dictionary_name='ctd_raw_param_dict', records_per_granule=2, granule_publish_rate=5 )
instrument_agent_obj = any_old(RT.InstrumentAgent, {"stream_configurations":[raw_config]})
instrument_agent_id = self.IMS.create_instrument_agent(instrument_agent_obj)
# device creation
instrument_device_id = self.IMS.create_instrument_device(any_old(RT.InstrumentDevice))
# data product creation
dp_obj = any_old(RT.DataProduct, {"temporal_domain":tdom, "spatial_domain": sdom})
dp_id = self.DP.create_data_product(data_product=dp_obj, stream_definition_id=raw_stream_def_id)
self.DAMS.assign_data_product(input_resource_id=instrument_device_id, data_product_id=dp_id)
self.DP.activate_data_product_persistence(data_product_id=dp_id)
# assignments
self.RR2.assign_instrument_agent_instance_to_instrument_device(instrument_agent_instance_id, instrument_device_id)
self.RR2.assign_instrument_agent_to_instrument_agent_instance(instrument_agent_id, instrument_agent_instance_id)
self.RR2.assign_instrument_device_to_org_with_has_resource(instrument_agent_instance_id, org_id)
return instrument_agent_instance_id, instrument_agent_id, instrument_device_id
# can't do anything without an agent instance obj
log.debug("Testing that preparing a launcher without agent instance raises an error")
self.assertRaises(AssertionError, pconfig_builder.prepare, will_launch=False)
log.debug("Making the structure for a platform agent, which will be the child")
platform_agent_instance_child_id, _, platform_device_child_id = _make_platform_agent_structure()
platform_agent_instance_child_obj = self.RR2.read(platform_agent_instance_child_id)
log.debug("Preparing a valid agent instance launch, for config only")
pconfig_builder.set_agent_instance_object(platform_agent_instance_child_obj)
child_config = pconfig_builder.prepare(will_launch=False)
verify_child_config(child_config, platform_device_child_id)
log.debug("Making the structure for a platform agent, which will be the parent")
platform_agent_instance_parent_id, _, platform_device_parent_id = _make_platform_agent_structure()
platform_agent_instance_parent_obj = self.RR2.read(platform_agent_instance_parent_id)
log.debug("Testing child-less parent as a child config")
pconfig_builder.set_agent_instance_object(platform_agent_instance_parent_obj)
parent_config = pconfig_builder.prepare(will_launch=False)
verify_child_config(parent_config, platform_device_parent_id)
log.debug("assigning child platform to parent")
self.RR2.assign_platform_device_to_platform_device(platform_device_child_id, platform_device_parent_id)
child_device_ids = self.RR2.find_platform_device_ids_of_device(platform_device_parent_id)
self.assertNotEqual(0, len(child_device_ids))
log.debug("Testing parent + child as parent config")
pconfig_builder.set_agent_instance_object(platform_agent_instance_parent_obj)
parent_config = pconfig_builder.prepare(will_launch=False)
verify_parent_config(parent_config, platform_device_parent_id, platform_device_child_id)
log.debug("making the structure for an instrument agent")
instrument_agent_instance_id, _, instrument_device_id = _make_instrument_agent_structure()
instrument_agent_instance_obj = self.RR2.read(instrument_agent_instance_id)
log.debug("Testing instrument config")
iconfig_builder.set_agent_instance_object(instrument_agent_instance_obj)
instrument_config = iconfig_builder.prepare(will_launch=False)
verify_instrument_config(instrument_config, instrument_device_id)
log.debug("assigning instrument to platform")
self.RR2.assign_instrument_device_to_platform_device(instrument_device_id, platform_device_child_id)
child_device_ids = self.RR2.find_instrument_device_ids_of_device(platform_device_child_id)
self.assertNotEqual(0, len(child_device_ids))
log.debug("Testing entire config")
pconfig_builder.set_agent_instance_object(platform_agent_instance_parent_obj)
full_config = pconfig_builder.prepare(will_launch=False)
verify_parent_config(full_config, platform_device_parent_id, platform_device_child_id, instrument_device_id)
#self.fail(parent_config)
#plauncher.prepare(will_launch=False)
def sample_nested_platform_agent_instance_config(self):
"""
for informational purposes
"""
ret = {'org_name': 'Org_1',
'alarm_defs': {},
'driver_config': {'process_type': ('ZMQPyClassDriverLauncher',)},
'stream_config': {'parameter_dictionary': 'lots of stuff'},
'agent': {'resource_id': '33e54106c4444444862da082098bc123'},
'startup_config': {},
'device_type': 'PlatformDevice',
'children': {'76a39596eeff4fd5b409c4cb93f0e581':
{'org_name': 'Org_1',
'alarm_defs': {},
'driver_config': {'process_type': ('ZMQPyClassDriverLauncher',)},
'stream_config': {'parameter_dictionary': 'lots of stuff'},
'agent': {'resource_id': '76a39596eeff4fd5b409c4cb93f0e581'},
'startup_config': {},
'device_type': 'PlatformDevice',
'children': {}}}}
return ret
class TestDMEnd2End(IonIntegrationTestCase):
def setUp(self): # Love the non pep-8 convention
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.process_dispatcher = ProcessDispatcherServiceClient()
self.pubsub_management = PubsubManagementServiceClient()
self.resource_registry = ResourceRegistryServiceClient()
self.dataset_management = DatasetManagementServiceClient()
self.ingestion_management = IngestionManagementServiceClient()
self.data_retriever = DataRetrieverServiceClient()
self.pids = []
self.event = Event()
self.exchange_space_name = 'test_granules'
self.exchange_point_name = 'science_data'
self.i = 0
self.purge_queues()
self.queue_buffer = []
self.streams = []
self.addCleanup(self.stop_all_ingestion)
def purge_queues(self):
xn = self.container.ex_manager.create_xn_queue('science_granule_ingestion')
xn.purge()
def tearDown(self):
self.purge_queues()
for pid in self.pids:
self.container.proc_manager.terminate_process(pid)
IngestionManagementIntTest.clean_subscriptions()
for queue in self.queue_buffer:
if isinstance(queue, ExchangeNameQueue):
queue.delete()
elif isinstance(queue, str):
xn = self.container.ex_manager.create_xn_queue(queue)
xn.delete()
#--------------------------------------------------------------------------------
# Helper/Utility methods
#--------------------------------------------------------------------------------
def create_dataset(self, parameter_dict_id=''):
'''
Creates a time-series dataset
'''
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
if not parameter_dict_id:
parameter_dict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
dataset_id = self.dataset_management.create_dataset('test_dataset_%i'%self.i, parameter_dictionary_id=parameter_dict_id, spatial_domain=sdom, temporal_domain=tdom)
return dataset_id
def get_datastore(self, dataset_id):
'''
Gets an instance of the datastore
This method is primarily used to defeat a bug where integration tests in multiple containers may sometimes
delete a CouchDB datastore and the other containers are unaware of the new state of the datastore.
'''
dataset = self.dataset_management.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def get_ingestion_config(self):
'''
Grab the ingestion configuration from the resource registry
'''
# The ingestion configuration should have been created by the bootstrap service
# which is configured through r2deploy.yml
ingest_configs, _ = self.resource_registry.find_resources(restype=RT.IngestionConfiguration,id_only=True)
return ingest_configs[0]
def launch_producer(self, stream_id=''):
'''
Launch the producer
'''
pid = self.container.spawn_process('better_data_producer', 'ion.processes.data.example_data_producer', 'BetterDataProducer', {'process':{'stream_id':stream_id}})
self.pids.append(pid)
def make_simple_dataset(self):
'''
Makes a stream, a stream definition and a dataset, the essentials for most of these tests
'''
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
stream_def_id = self.pubsub_management.create_stream_definition('ctd data', parameter_dictionary_id=pdict_id)
stream_id, route = self.pubsub_management.create_stream('ctd stream %i' % self.i, 'xp1', stream_definition_id=stream_def_id)
dataset_id = self.create_dataset(pdict_id)
self.get_datastore(dataset_id)
self.i += 1
return stream_id, route, stream_def_id, dataset_id
def publish_hifi(self,stream_id,stream_route,offset=0):
'''
Publish deterministic data
'''
pub = StandaloneStreamPublisher(stream_id, stream_route)
stream_def = self.pubsub_management.read_stream_definition(stream_id=stream_id)
stream_def_id = stream_def._id
rdt = RecordDictionaryTool(stream_definition_id=stream_def_id)
rdt['time'] = np.arange(10) + (offset * 10)
rdt['temp'] = np.arange(10) + (offset * 10)
pub.publish(rdt.to_granule())
def publish_fake_data(self,stream_id, route):
'''
Make four granules
'''
for i in xrange(4):
self.publish_hifi(stream_id,route,i)
def start_ingestion(self, stream_id, dataset_id):
'''
Starts ingestion/persistence for a given dataset
'''
ingest_config_id = self.get_ingestion_config()
self.ingestion_management.persist_data_stream(stream_id=stream_id, ingestion_configuration_id=ingest_config_id, dataset_id=dataset_id)
def stop_ingestion(self, stream_id):
ingest_config_id = self.get_ingestion_config()
self.ingestion_management.unpersist_data_stream(stream_id=stream_id, ingestion_configuration_id=ingest_config_id)
def stop_all_ingestion(self):
try:
[self.stop_ingestion(sid) for sid in self.streams]
except:
pass
def validate_granule_subscription(self, msg, route, stream_id):
'''
Validation for granule format
'''
if msg == {}:
return
rdt = RecordDictionaryTool.load_from_granule(msg)
log.info('%s', rdt.pretty_print())
self.assertIsInstance(msg,Granule,'Message is improperly formatted. (%s)' % type(msg))
self.event.set()
def wait_until_we_have_enough_granules(self, dataset_id='',data_size=40):
'''
Loops until there is a sufficient amount of data in the dataset
'''
done = False
with gevent.Timeout(40):
while not done:
extents = self.dataset_management.dataset_extents(dataset_id, 'time')[0]
granule = self.data_retriever.retrieve_last_data_points(dataset_id, 1)
rdt = RecordDictionaryTool.load_from_granule(granule)
if rdt['time'] and rdt['time'][0] != rdt._pdict.get_context('time').fill_value and extents >= data_size:
done = True
else:
gevent.sleep(0.2)
#--------------------------------------------------------------------------------
# Test Methods
#--------------------------------------------------------------------------------
@attr('SMOKE')
def test_dm_end_2_end(self):
#--------------------------------------------------------------------------------
# Set up a stream and have a mock instrument (producer) send data
#--------------------------------------------------------------------------------
self.event.clear()
# Get a precompiled parameter dictionary with basic ctd fields
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict',id_only=True)
context_ids = self.dataset_management.read_parameter_contexts(pdict_id, id_only=True)
# Add a field that supports binary data input.
bin_context = ParameterContext('binary', param_type=ArrayType())
context_ids.append(self.dataset_management.create_parameter_context('binary', bin_context.dump()))
# Add another field that supports dictionary elements.
rec_context = ParameterContext('records', param_type=RecordType())
context_ids.append(self.dataset_management.create_parameter_context('records', rec_context.dump()))
pdict_id = self.dataset_management.create_parameter_dictionary('replay_pdict', parameter_context_ids=context_ids, temporal_context='time')
stream_definition = self.pubsub_management.create_stream_definition('ctd data', parameter_dictionary_id=pdict_id)
stream_id, route = self.pubsub_management.create_stream('producer', exchange_point=self.exchange_point_name, stream_definition_id=stream_definition)
#--------------------------------------------------------------------------------
# Start persisting the data on the stream
# - Get the ingestion configuration from the resource registry
# - Create the dataset
# - call persist_data_stream to setup the subscription for the ingestion workers
# on the stream that you specify which causes the data to be persisted
#--------------------------------------------------------------------------------
ingest_config_id = self.get_ingestion_config()
dataset_id = self.create_dataset(pdict_id)
self.ingestion_management.persist_data_stream(stream_id=stream_id, ingestion_configuration_id=ingest_config_id, dataset_id=dataset_id)
#--------------------------------------------------------------------------------
# Now the granules are ingesting and persisted
#--------------------------------------------------------------------------------
self.launch_producer(stream_id)
self.wait_until_we_have_enough_granules(dataset_id,40)
#--------------------------------------------------------------------------------
# Now get the data in one chunk using an RPC Call to start_retreive
#--------------------------------------------------------------------------------
replay_data = self.data_retriever.retrieve(dataset_id)
self.assertIsInstance(replay_data, Granule)
rdt = RecordDictionaryTool.load_from_granule(replay_data)
self.assertTrue((rdt['time'][:10] == np.arange(10)).all(),'%s' % rdt['time'][:])
self.assertTrue((rdt['binary'][:10] == np.array(['hi']*10, dtype='object')).all())
#--------------------------------------------------------------------------------
# Now to try the streamed approach
#--------------------------------------------------------------------------------
replay_stream_id, replay_route = self.pubsub_management.create_stream('replay_out', exchange_point=self.exchange_point_name, stream_definition_id=stream_definition)
self.replay_id, process_id = self.data_retriever.define_replay(dataset_id=dataset_id, stream_id=replay_stream_id)
log.info('Process ID: %s', process_id)
replay_client = ReplayClient(process_id)
#--------------------------------------------------------------------------------
# Create the listening endpoint for the the retriever to talk to
#--------------------------------------------------------------------------------
xp = self.container.ex_manager.create_xp(self.exchange_point_name)
subscriber = StandaloneStreamSubscriber(self.exchange_space_name, self.validate_granule_subscription)
self.queue_buffer.append(self.exchange_space_name)
subscriber.start()
subscriber.xn.bind(replay_route.routing_key, xp)
self.data_retriever.start_replay_agent(self.replay_id)
self.assertTrue(replay_client.await_agent_ready(5), 'The process never launched')
replay_client.start_replay()
self.assertTrue(self.event.wait(10))
subscriber.stop()
self.data_retriever.cancel_replay_agent(self.replay_id)
#--------------------------------------------------------------------------------
# Test the slicing capabilities
#--------------------------------------------------------------------------------
granule = self.data_retriever.retrieve(dataset_id=dataset_id, query={'tdoa':slice(0,5)})
rdt = RecordDictionaryTool.load_from_granule(granule)
b = rdt['time'] == np.arange(5)
self.assertTrue(b.all() if not isinstance(b,bool) else b)
self.streams.append(stream_id)
self.stop_ingestion(stream_id)
def test_coverage_transform(self):
ph = ParameterHelper(self.dataset_management, self.addCleanup)
pdict_id = ph.create_parsed()
stream_def_id = self.pubsub_management.create_stream_definition('ctd parsed', parameter_dictionary_id=pdict_id)
self.addCleanup(self.pubsub_management.delete_stream_definition, stream_def_id)
stream_id, route = self.pubsub_management.create_stream('example', exchange_point=self.exchange_point_name, stream_definition_id=stream_def_id)
self.addCleanup(self.pubsub_management.delete_stream, stream_id)
ingestion_config_id = self.get_ingestion_config()
dataset_id = self.create_dataset(pdict_id)
self.ingestion_management.persist_data_stream(stream_id=stream_id, ingestion_configuration_id=ingestion_config_id, dataset_id=dataset_id)
self.addCleanup(self.ingestion_management.unpersist_data_stream, stream_id, ingestion_config_id)
publisher = StandaloneStreamPublisher(stream_id, route)
rdt = ph.get_rdt(stream_def_id)
ph.fill_parsed_rdt(rdt)
dataset_monitor = DatasetMonitor(dataset_id)
self.addCleanup(dataset_monitor.stop)
publisher.publish(rdt.to_granule())
self.assertTrue(dataset_monitor.event.wait(30))
replay_granule = self.data_retriever.retrieve(dataset_id)
rdt_out = RecordDictionaryTool.load_from_granule(replay_granule)
np.testing.assert_array_almost_equal(rdt_out['time'], rdt['time'])
np.testing.assert_array_almost_equal(rdt_out['temp'], rdt['temp'])
np.testing.assert_array_almost_equal(rdt_out['conductivity_L1'], np.array([42.914]))
np.testing.assert_array_almost_equal(rdt_out['temp_L1'], np.array([20.]))
np.testing.assert_array_almost_equal(rdt_out['pressure_L1'], np.array([3.068]))
np.testing.assert_array_almost_equal(rdt_out['density'], np.array([1021.7144739593881]))
np.testing.assert_array_almost_equal(rdt_out['salinity'], np.array([30.935132729668283]))
def test_qc_events(self):
ph = ParameterHelper(self.dataset_management, self.addCleanup)
pdict_id = ph.create_qc_pdict()
stream_def_id = self.pubsub_management.create_stream_definition('qc stream def', parameter_dictionary_id=pdict_id)
self.addCleanup(self.pubsub_management.delete_stream_definition, stream_def_id)
stream_id, route = self.pubsub_management.create_stream('qc stream', exchange_point=self.exchange_point_name, stream_definition_id=stream_def_id)
self.addCleanup(self.pubsub_management.delete_stream, stream_id)
ingestion_config_id = self.get_ingestion_config()
dataset_id = self.create_dataset(pdict_id)
config = DotDict()
self.ingestion_management.persist_data_stream(stream_id=stream_id, ingestion_configuration_id=ingestion_config_id, dataset_id=dataset_id, config=config)
self.addCleanup(self.ingestion_management.unpersist_data_stream, stream_id, ingestion_config_id)
publisher = StandaloneStreamPublisher(stream_id, route)
rdt = RecordDictionaryTool(stream_definition_id=stream_def_id)
rdt['time'] = np.arange(10)
rdt['temp'] = np.arange(10) * 3
verified = Event()
def verification(event, *args, **kwargs):
self.assertEquals(event.qc_parameter, 'temp_qc')
self.assertEquals(event.temporal_value, 7)
verified.set()
es = EventSubscriber(event_type=OT.ParameterQCEvent, origin=dataset_id, callback=verification, auto_delete=True)
es.start()
self.addCleanup(es.stop)
publisher.publish(rdt.to_granule())
self.assertTrue(verified.wait(10))
def test_lookup_values_ingest_replay(self):
ph = ParameterHelper(self.dataset_management, self.addCleanup)
pdict_id = ph.create_lookups()
stream_def_id = self.pubsub_management.create_stream_definition('lookups', parameter_dictionary_id=pdict_id)
self.addCleanup(self.pubsub_management.delete_stream_definition, stream_def_id)
stream_id, route = self.pubsub_management.create_stream('example', exchange_point=self.exchange_point_name, stream_definition_id=stream_def_id)
self.addCleanup(self.pubsub_management.delete_stream, stream_id)
ingestion_config_id = self.get_ingestion_config()
dataset_id = self.create_dataset(pdict_id)
config = DotDict()
config.process.lookup_docs = ['test1', 'test2']
self.ingestion_management.persist_data_stream(stream_id=stream_id, ingestion_configuration_id=ingestion_config_id, dataset_id=dataset_id, config=config)
self.addCleanup(self.ingestion_management.unpersist_data_stream, stream_id, ingestion_config_id)
stored_value_manager = StoredValueManager(self.container)
stored_value_manager.stored_value_cas('test1',{'offset_a':10.0, 'offset_b':13.1})
publisher = StandaloneStreamPublisher(stream_id, route)
rdt = RecordDictionaryTool(stream_definition_id=stream_def_id)
rdt['time'] = np.arange(20)
rdt['temp'] = [20.0] * 20
granule = rdt.to_granule()
dataset_monitor = DatasetMonitor(dataset_id)
self.addCleanup(dataset_monitor.stop)
publisher.publish(granule)
self.assertTrue(dataset_monitor.event.wait(30))
replay_granule = self.data_retriever.retrieve(dataset_id)
rdt_out = RecordDictionaryTool.load_from_granule(replay_granule)
np.testing.assert_array_almost_equal(rdt_out['time'], np.arange(20))
np.testing.assert_array_almost_equal(rdt_out['temp'], np.array([20.] * 20))
np.testing.assert_array_almost_equal(rdt_out['calibrated'], np.array([30.]*20))
np.testing.assert_array_equal(rdt_out['offset_b'], np.array([rdt_out.fill_value('offset_b')] * 20))
rdt = RecordDictionaryTool(stream_definition_id=stream_def_id)
rdt['time'] = np.arange(20,40)
rdt['temp'] = [20.0] * 20
granule = rdt.to_granule()
dataset_monitor.event.clear()
stored_value_manager.stored_value_cas('test1',{'offset_a':20.0})
stored_value_manager.stored_value_cas('coefficient_document',{'offset_b':10.0})
gevent.sleep(2)
publisher.publish(granule)
self.assertTrue(dataset_monitor.event.wait(30))
replay_granule = self.data_retriever.retrieve(dataset_id)
rdt_out = RecordDictionaryTool.load_from_granule(replay_granule)
np.testing.assert_array_almost_equal(rdt_out['time'], np.arange(40))
np.testing.assert_array_almost_equal(rdt_out['temp'], np.array([20.] * 20 + [20.] * 20))
np.testing.assert_array_equal(rdt_out['offset_b'], np.array([10.] * 40))
np.testing.assert_array_almost_equal(rdt_out['calibrated'], np.array([30.]*20 + [40.]*20))
np.testing.assert_array_almost_equal(rdt_out['calibrated_b'], np.array([40.] * 20 + [50.] * 20))
@unittest.skip('Doesnt work')
@attr('LOCOINT')
@unittest.skipIf(os.getenv('CEI_LAUNCH_TEST', False), 'Skip test while in CEI LAUNCH mode')
def test_replay_pause(self):
# Get a precompiled parameter dictionary with basic ctd fields
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict',id_only=True)
context_ids = self.dataset_management.read_parameter_contexts(pdict_id, id_only=True)
# Add a field that supports binary data input.
bin_context = ParameterContext('binary', param_type=ArrayType())
context_ids.append(self.dataset_management.create_parameter_context('binary', bin_context.dump()))
# Add another field that supports dictionary elements.
rec_context = ParameterContext('records', param_type=RecordType())
context_ids.append(self.dataset_management.create_parameter_context('records', rec_context.dump()))
pdict_id = self.dataset_management.create_parameter_dictionary('replay_pdict', parameter_context_ids=context_ids, temporal_context='time')
stream_def_id = self.pubsub_management.create_stream_definition('replay_stream', parameter_dictionary_id=pdict_id)
replay_stream, replay_route = self.pubsub_management.create_stream('replay', 'xp1', stream_definition_id=stream_def_id)
dataset_id = self.create_dataset(pdict_id)
scov = DatasetManagementService._get_simplex_coverage(dataset_id)
bb = CoverageCraft(scov)
bb.rdt['time'] = np.arange(100)
bb.rdt['temp'] = np.random.random(100) + 30
bb.sync_with_granule()
DatasetManagementService._persist_coverage(dataset_id, bb.coverage) # This invalidates it for multi-host configurations
# Set up the subscriber to verify the data
subscriber = StandaloneStreamSubscriber(self.exchange_space_name, self.validate_granule_subscription)
xp = self.container.ex_manager.create_xp('xp1')
self.queue_buffer.append(self.exchange_space_name)
subscriber.start()
subscriber.xn.bind(replay_route.routing_key, xp)
# Set up the replay agent and the client wrapper
# 1) Define the Replay (dataset and stream to publish on)
self.replay_id, process_id = self.data_retriever.define_replay(dataset_id=dataset_id, stream_id=replay_stream)
# 2) Make a client to the interact with the process (optionall provide it a process to bind with)
replay_client = ReplayClient(process_id)
# 3) Start the agent (launch the process)
self.data_retriever.start_replay_agent(self.replay_id)
# 4) Start replaying...
replay_client.start_replay()
# Wait till we get some granules
self.assertTrue(self.event.wait(5))
# We got granules, pause the replay, clear the queue and allow the process to finish consuming
replay_client.pause_replay()
gevent.sleep(1)
subscriber.xn.purge()
self.event.clear()
# Make sure there's no remaining messages being consumed
self.assertFalse(self.event.wait(1))
# Resume the replay and wait until we start getting granules again
replay_client.resume_replay()
self.assertTrue(self.event.wait(5))
# Stop the replay, clear the queues
replay_client.stop_replay()
gevent.sleep(1)
subscriber.xn.purge()
self.event.clear()
# Make sure that it did indeed stop
self.assertFalse(self.event.wait(1))
subscriber.stop()
def test_retrieve_and_transform(self):
# Make a simple dataset and start ingestion, pretty standard stuff.
ctd_stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
self.start_ingestion(ctd_stream_id, dataset_id)
# Stream definition for the salinity data
salinity_pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
sal_stream_def_id = self.pubsub_management.create_stream_definition('sal data', parameter_dictionary_id=salinity_pdict_id)
rdt = RecordDictionaryTool(stream_definition_id=stream_def_id)
rdt['time'] = np.arange(10)
rdt['temp'] = np.random.randn(10) * 10 + 30
rdt['conductivity'] = np.random.randn(10) * 2 + 10
rdt['pressure'] = np.random.randn(10) * 1 + 12
publisher = StandaloneStreamPublisher(ctd_stream_id, route)
publisher.publish(rdt.to_granule())
rdt['time'] = np.arange(10,20)
publisher.publish(rdt.to_granule())
self.wait_until_we_have_enough_granules(dataset_id, 20)
granule = self.data_retriever.retrieve(dataset_id,
None,
None,
'ion.processes.data.transforms.ctd.ctd_L2_salinity',
'CTDL2SalinityTransformAlgorithm',
kwargs=dict(params=sal_stream_def_id))
rdt = RecordDictionaryTool.load_from_granule(granule)
for i in rdt['salinity']:
self.assertNotEquals(i,0)
self.streams.append(ctd_stream_id)
self.stop_ingestion(ctd_stream_id)
def test_last_granule(self):
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
self.start_ingestion(stream_id, dataset_id)
self.publish_hifi(stream_id,route, 0)
self.publish_hifi(stream_id,route, 1)
self.wait_until_we_have_enough_granules(dataset_id,20) # I just need two
success = False
def verifier():
replay_granule = self.data_retriever.retrieve_last_data_points(dataset_id, 10)
rdt = RecordDictionaryTool.load_from_granule(replay_granule)
comp = rdt['time'] == np.arange(10) + 10
if not isinstance(comp,bool):
return comp.all()
return False
success = poll(verifier)
self.assertTrue(success)
success = False
def verify_points():
replay_granule = self.data_retriever.retrieve_last_data_points(dataset_id,5)
rdt = RecordDictionaryTool.load_from_granule(replay_granule)
comp = rdt['time'] == np.arange(15,20)
if not isinstance(comp,bool):
return comp.all()
return False
success = poll(verify_points)
self.assertTrue(success)
self.streams.append(stream_id)
self.stop_ingestion(stream_id)
def test_replay_with_parameters(self):
#--------------------------------------------------------------------------------
# Create the configurations and the dataset
#--------------------------------------------------------------------------------
# Get a precompiled parameter dictionary with basic ctd fields
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict',id_only=True)
context_ids = self.dataset_management.read_parameter_contexts(pdict_id, id_only=True)
# Add a field that supports binary data input.
bin_context = ParameterContext('binary', param_type=ArrayType())
context_ids.append(self.dataset_management.create_parameter_context('binary', bin_context.dump()))
# Add another field that supports dictionary elements.
rec_context = ParameterContext('records', param_type=RecordType())
context_ids.append(self.dataset_management.create_parameter_context('records', rec_context.dump()))
pdict_id = self.dataset_management.create_parameter_dictionary('replay_pdict', parameter_context_ids=context_ids, temporal_context='time')
stream_def_id = self.pubsub_management.create_stream_definition('replay_stream', parameter_dictionary_id=pdict_id)
stream_id, route = self.pubsub_management.create_stream('replay_with_params', exchange_point=self.exchange_point_name, stream_definition_id=stream_def_id)
config_id = self.get_ingestion_config()
dataset_id = self.create_dataset(pdict_id)
self.ingestion_management.persist_data_stream(stream_id=stream_id, ingestion_configuration_id=config_id, dataset_id=dataset_id)
dataset_monitor = DatasetMonitor(dataset_id)
self.addCleanup(dataset_monitor.stop)
self.publish_fake_data(stream_id, route)
self.assertTrue(dataset_monitor.event.wait(30))
query = {
'start_time': 0 - 2208988800,
'end_time': 20 - 2208988800,
'stride_time' : 2,
'parameters': ['time','temp']
}
retrieved_data = self.data_retriever.retrieve(dataset_id=dataset_id,query=query)
rdt = RecordDictionaryTool.load_from_granule(retrieved_data)
comp = np.arange(0,20,2) == rdt['time']
self.assertTrue(comp.all(),'%s' % rdt.pretty_print())
self.assertEquals(set(rdt.iterkeys()), set(['time','temp']))
extents = self.dataset_management.dataset_extents(dataset_id=dataset_id, parameters=['time','temp'])
self.assertTrue(extents['time']>=20)
self.assertTrue(extents['temp']>=20)
self.streams.append(stream_id)
self.stop_ingestion(stream_id)
def test_repersist_data(self):
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
self.start_ingestion(stream_id, dataset_id)
self.publish_hifi(stream_id,route,0)
self.publish_hifi(stream_id,route,1)
self.wait_until_we_have_enough_granules(dataset_id,20)
config_id = self.get_ingestion_config()
self.ingestion_management.unpersist_data_stream(stream_id=stream_id,ingestion_configuration_id=config_id)
self.ingestion_management.persist_data_stream(stream_id=stream_id,ingestion_configuration_id=config_id,dataset_id=dataset_id)
self.publish_hifi(stream_id,route,2)
self.publish_hifi(stream_id,route,3)
self.wait_until_we_have_enough_granules(dataset_id,40)
success = False
with gevent.timeout.Timeout(5):
while not success:
replay_granule = self.data_retriever.retrieve(dataset_id)
rdt = RecordDictionaryTool.load_from_granule(replay_granule)
comp = rdt['time'] == np.arange(0,40)
if not isinstance(comp,bool):
success = comp.all()
gevent.sleep(1)
self.assertTrue(success)
self.streams.append(stream_id)
self.stop_ingestion(stream_id)
@attr('LOCOINT')
@unittest.skipIf(os.getenv('CEI_LAUNCH_TEST', False), 'Host requires file-system access to coverage files, CEI mode does not support.')
def test_correct_time(self):
# There are 2208988800 seconds between Jan 1 1900 and Jan 1 1970, i.e.
# the conversion factor between unix and NTP time
unix_now = np.floor(time.time())
ntp_now = unix_now + 2208988800
unix_ago = unix_now - 20
ntp_ago = unix_ago + 2208988800
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
coverage = DatasetManagementService._get_simplex_coverage(dataset_id)
coverage.insert_timesteps(20)
coverage.set_parameter_values('time', np.arange(ntp_ago,ntp_now))
temporal_bounds = self.dataset_management.dataset_temporal_bounds(dataset_id)
self.assertTrue( np.abs(temporal_bounds[0] - unix_ago) < 2)
self.assertTrue( np.abs(temporal_bounds[1] - unix_now) < 2)
@attr('LOCOINT')
@unittest.skipIf(os.getenv('CEI_LAUNCH_TEST', False), 'Host requires file-system access to coverage files, CEI mode does not support.')
def test_empty_coverage_time(self):
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
coverage = DatasetManagementService._get_coverage(dataset_id)
temporal_bounds = self.dataset_management.dataset_temporal_bounds(dataset_id)
self.assertEquals([coverage.get_parameter_context('time').fill_value] *2, temporal_bounds)
@attr('LOCOINT')
@unittest.skipIf(os.getenv('CEI_LAUNCH_TEST', False), 'Host requires file-system access to coverage files, CEI mode does not support.')
def test_out_of_band_retrieve(self):
# Setup the environemnt
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
self.start_ingestion(stream_id, dataset_id)
# Fill the dataset
self.publish_fake_data(stream_id, route)
self.wait_until_we_have_enough_granules(dataset_id,40)
# Retrieve the data
granule = DataRetrieverService.retrieve_oob(dataset_id)
rdt = RecordDictionaryTool.load_from_granule(granule)
self.assertTrue((rdt['time'] == np.arange(40)).all())
@attr('LOCOINT')
@unittest.skipIf(os.getenv('CEI_LAUNCH_TEST', False), 'Host requires file-system access to coverage files, CEI mode does not support.')
def test_retrieve_cache(self):
DataRetrieverService._refresh_interval = 1
datasets = [self.make_simple_dataset() for i in xrange(10)]
for stream_id, route, stream_def_id, dataset_id in datasets:
coverage = DatasetManagementService._get_simplex_coverage(dataset_id)
coverage.insert_timesteps(10)
coverage.set_parameter_values('time', np.arange(10))
coverage.set_parameter_values('temp', np.arange(10))
# Verify cache hit and refresh
dataset_ids = [i[3] for i in datasets]
self.assertTrue(dataset_ids[0] not in DataRetrieverService._retrieve_cache)
DataRetrieverService._get_coverage(dataset_ids[0]) # Hit the chache
cov, age = DataRetrieverService._retrieve_cache[dataset_ids[0]]
# Verify that it was hit and it's now in there
self.assertTrue(dataset_ids[0] in DataRetrieverService._retrieve_cache)
gevent.sleep(DataRetrieverService._refresh_interval + 0.2)
DataRetrieverService._get_coverage(dataset_ids[0]) # Hit the chache
cov, age2 = DataRetrieverService._retrieve_cache[dataset_ids[0]]
self.assertTrue(age2 != age)
for dataset_id in dataset_ids:
DataRetrieverService._get_coverage(dataset_id)
self.assertTrue(dataset_ids[0] not in DataRetrieverService._retrieve_cache)
stream_id, route, stream_def, dataset_id = datasets[0]
self.start_ingestion(stream_id, dataset_id)
DataRetrieverService._get_coverage(dataset_id)
self.assertTrue(dataset_id in DataRetrieverService._retrieve_cache)
DataRetrieverService._refresh_interval = 100
self.publish_hifi(stream_id,route,1)
self.wait_until_we_have_enough_granules(dataset_id, data_size=20)
event = gevent.event.Event()
with gevent.Timeout(20):
while not event.wait(0.1):
if dataset_id not in DataRetrieverService._retrieve_cache:
event.set()
self.assertTrue(event.is_set())
def publish_and_wait(self, dataset_id, granule):
stream_ids, _ = self.resource_registry.find_objects(dataset_id, PRED.hasStream,id_only=True)
stream_id=stream_ids[0]
route = self.pubsub_management.read_stream_route(stream_id)
publisher = StandaloneStreamPublisher(stream_id,route)
dataset_monitor = DatasetMonitor(dataset_id)
publisher.publish(granule)
self.assertTrue(dataset_monitor.event.wait(10))
@attr('LOCOINT')
@unittest.skipIf(os.getenv('CEI_LAUNCH_TEST', False), 'Host requires file-system access to coverage files, CEI mode does not support.')
def test_thorough_gap_analysis(self):
dataset_id = self.test_ingestion_gap_analysis()
vcov = DatasetManagementService._get_coverage(dataset_id)
self.assertIsInstance(vcov,ViewCoverage)
ccov = vcov.reference_coverage
self.assertIsInstance(ccov, ComplexCoverage)
self.assertEquals(len(ccov._reference_covs), 3)
def test_ingestion_gap_analysis(self):
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
self.start_ingestion(stream_id, dataset_id)
self.addCleanup(self.stop_ingestion, stream_id)
connection1 = uuid4().hex
connection2 = uuid4().hex
rdt = RecordDictionaryTool(stream_definition_id=stream_def_id)
rdt['time'] = [0]
rdt['temp'] = [0]
self.publish_and_wait(dataset_id, rdt.to_granule(connection_id=connection1,connection_index='0'))
rdt['time'] = [1]
rdt['temp'] = [1]
self.publish_and_wait(dataset_id, rdt.to_granule(connection_id=connection1,connection_index=1))
rdt['time'] = [2]
rdt['temp'] = [2]
self.publish_and_wait(dataset_id, rdt.to_granule(connection_id=connection1,connection_index='3')) # Gap, missed message
rdt['time'] = [3]
rdt['temp'] = [3]
self.publish_and_wait(dataset_id, rdt.to_granule(connection_id=connection2,connection_index='3')) # Gap, new connection
rdt['time'] = [4]
rdt['temp'] = [4]
self.publish_and_wait(dataset_id, rdt.to_granule(connection_id=connection2,connection_index='4'))
rdt['time'] = [5]
rdt['temp'] = [5]
self.publish_and_wait(dataset_id, rdt.to_granule(connection_id=connection2,connection_index=5))
granule = self.data_retriever.retrieve(dataset_id)
rdt = RecordDictionaryTool.load_from_granule(granule)
np.testing.assert_array_equal(rdt['time'], np.arange(6))
np.testing.assert_array_equal(rdt['temp'], np.arange(6))
return dataset_id
@unittest.skip('Outdated due to ingestion retry')
@attr('LOCOINT')
@unittest.skipIf(os.getenv('CEI_LAUNCH_TEST', False), 'Host requires file-system access to coverage files, CEI mode does not support.')
def test_ingestion_failover(self):
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
self.start_ingestion(stream_id, dataset_id)
event = Event()
def cb(*args, **kwargs):
event.set()
sub = EventSubscriber(event_type="ExceptionEvent", callback=cb, origin="stream_exception")
sub.start()
self.publish_fake_data(stream_id, route)
self.wait_until_we_have_enough_granules(dataset_id, 40)
file_path = DatasetManagementService._get_coverage_path(dataset_id)
master_file = os.path.join(file_path, '%s_master.hdf5' % dataset_id)
with open(master_file, 'w') as f:
f.write('this will crash HDF')
self.publish_hifi(stream_id, route, 5)
self.assertTrue(event.wait(10))
sub.stop()
@attr('LOCOINT')
@unittest.skipIf(os.getenv('CEI_LAUNCH_TEST', False), 'Host requires file-system access to coverage files, CEI mode does not support.')
def test_coverage_types(self):
# Make a simple dataset and start ingestion, pretty standard stuff.
ctd_stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
cov = DatasetManagementService._get_coverage(dataset_id=dataset_id)
self.assertIsInstance(cov, ViewCoverage)
cov = DatasetManagementService._get_simplex_coverage(dataset_id=dataset_id)
self.assertIsInstance(cov, SimplexCoverage)
class TestActivateInstrumentIntegration(IonIntegrationTestCase):
def setUp(self):
# Start container
super(TestActivateInstrumentIntegration, self).setUp()
config = DotDict()
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml', config)
# Now create client to DataProductManagementService
self.rrclient = ResourceRegistryServiceClient(node=self.container.node)
self.damsclient = DataAcquisitionManagementServiceClient(node=self.container.node)
self.pubsubcli = PubsubManagementServiceClient(node=self.container.node)
self.imsclient = InstrumentManagementServiceClient(node=self.container.node)
self.dpclient = DataProductManagementServiceClient(node=self.container.node)
self.datasetclient = DatasetManagementServiceClient(node=self.container.node)
self.processdispatchclient = ProcessDispatcherServiceClient(node=self.container.node)
self.dataprocessclient = DataProcessManagementServiceClient(node=self.container.node)
self.dataproductclient = DataProductManagementServiceClient(node=self.container.node)
self.dataretrieverclient = DataRetrieverServiceClient(node=self.container.node)
self.dataset_management = DatasetManagementServiceClient()
self.usernotificationclient = UserNotificationServiceClient()
#setup listerner vars
self._data_greenlets = []
self._no_samples = None
self._samples_received = []
self.event_publisher = EventPublisher()
def create_logger(self, name, stream_id=''):
# logger process
producer_definition = ProcessDefinition(name=name+'_logger')
producer_definition.executable = {
'module':'ion.processes.data.stream_granule_logger',
'class':'StreamGranuleLogger'
}
logger_procdef_id = self.processdispatchclient.create_process_definition(process_definition=producer_definition)
configuration = {
'process':{
'stream_id':stream_id,
}
}
pid = self.processdispatchclient.schedule_process(process_definition_id=logger_procdef_id,
configuration=configuration)
return pid
def _create_notification(self, user_name = '', instrument_id='', product_id=''):
#--------------------------------------------------------------------------------------
# Make notification request objects
#--------------------------------------------------------------------------------------
notification_request_1 = NotificationRequest( name= 'notification_1',
origin=instrument_id,
origin_type="instrument",
event_type='ResourceLifecycleEvent')
notification_request_2 = NotificationRequest( name='notification_2',
origin=product_id,
origin_type="data product",
event_type='DetectionEvent')
#--------------------------------------------------------------------------------------
# Create a user and get the user_id
#--------------------------------------------------------------------------------------
user = UserInfo()
user.name = user_name
user.contact.email = '*****@*****.**' % user_name
user_id, _ = self.rrclient.create(user)
#--------------------------------------------------------------------------------------
# Create notification
#--------------------------------------------------------------------------------------
self.usernotificationclient.create_notification(notification=notification_request_1, user_id=user_id)
self.usernotificationclient.create_notification(notification=notification_request_2, user_id=user_id)
log.debug( "test_activateInstrumentSample: create_user_notifications user_id %s", str(user_id) )
return user_id
def get_datastore(self, dataset_id):
dataset = self.datasetclient.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def _check_computed_attributes_of_extended_instrument(self, expected_instrument_device_id = '',extended_instrument = None):
# Verify that computed attributes exist for the extended instrument
self.assertIsInstance(extended_instrument.computed.last_data_received_datetime, ComputedFloatValue)
self.assertIsInstance(extended_instrument.computed.uptime, ComputedStringValue)
self.assertIsInstance(extended_instrument.computed.power_status_roll_up, ComputedIntValue)
self.assertIsInstance(extended_instrument.computed.communications_status_roll_up, ComputedIntValue)
self.assertIsInstance(extended_instrument.computed.data_status_roll_up, ComputedIntValue)
self.assertIsInstance(extended_instrument.computed.location_status_roll_up, ComputedIntValue)
# the following assert will not work without elasticsearch.
#self.assertEqual( 1, len(extended_instrument.computed.user_notification_requests.value) )
# Verify the computed attribute for user notification requests
self.assertEqual( 1, len(extended_instrument.computed.user_notification_requests.value) )
notifications = extended_instrument.computed.user_notification_requests.value
notification = notifications[0]
self.assertEqual(expected_instrument_device_id, notification.origin)
self.assertEqual("instrument", notification.origin_type)
self.assertEqual('ResourceLifecycleEvent', notification.event_type)
def _check_computed_attributes_of_extended_product(self, expected_data_product_id = '', extended_data_product = None):
self.assertEqual(expected_data_product_id, extended_data_product._id)
log.debug("extended_data_product.computed: %s", extended_data_product.computed)
# Verify that computed attributes exist for the extended instrument
self.assertIsInstance(extended_data_product.computed.product_download_size_estimated, ComputedFloatValue)
self.assertIsInstance(extended_data_product.computed.number_active_subscriptions, ComputedIntValue)
self.assertIsInstance(extended_data_product.computed.data_url, ComputedStringValue)
self.assertIsInstance(extended_data_product.computed.stored_data_size, ComputedIntValue)
self.assertIsInstance(extended_data_product.computed.recent_granules, ComputedDictValue)
self.assertIsInstance(extended_data_product.computed.parameters, ComputedListValue)
self.assertIsInstance(extended_data_product.computed.recent_events, ComputedEventListValue)
self.assertIsInstance(extended_data_product.computed.provenance, ComputedDictValue)
self.assertIsInstance(extended_data_product.computed.user_notification_requests, ComputedListValue)
self.assertIsInstance(extended_data_product.computed.active_user_subscriptions, ComputedListValue)
self.assertIsInstance(extended_data_product.computed.past_user_subscriptions, ComputedListValue)
self.assertIsInstance(extended_data_product.computed.last_granule, ComputedDictValue)
self.assertIsInstance(extended_data_product.computed.is_persisted, ComputedIntValue)
self.assertIsInstance(extended_data_product.computed.data_contents_updated, ComputedStringValue)
self.assertIsInstance(extended_data_product.computed.data_datetime, ComputedListValue)
# exact text here keeps changing to fit UI capabilities. keep assertion general...
self.assertEqual( 2, len(extended_data_product.computed.data_datetime.value) )
notifications = extended_data_product.computed.user_notification_requests.value
notification = notifications[0]
self.assertEqual(expected_data_product_id, notification.origin)
self.assertEqual("data product", notification.origin_type)
self.assertEqual('DetectionEvent', notification.event_type)
@attr('LOCOINT')
#@unittest.skip('refactoring')
@unittest.skipIf(os.getenv('CEI_LAUNCH_TEST', False), 'Skip test while in CEI LAUNCH mode')
@patch.dict(CFG, {'endpoint':{'receive':{'timeout': 90}}})
def test_activateInstrumentSample(self):
self.loggerpids = []
# Create InstrumentModel
instModel_obj = IonObject(RT.InstrumentModel,
name='SBE37IMModel',
description="SBE37IMModel")
instModel_id = self.imsclient.create_instrument_model(instModel_obj)
log.debug( 'new InstrumentModel id = %s ', instModel_id)
raw_config = StreamConfiguration(stream_name='raw', parameter_dictionary_name='raw')
parsed_config = StreamConfiguration(stream_name='parsed', parameter_dictionary_name='ctd_parsed_param_dict')
# Create InstrumentAgent
instAgent_obj = IonObject(RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
driver_uri=DRV_URI_GOOD,
stream_configurations = [raw_config, parsed_config])
instAgent_id = self.imsclient.create_instrument_agent(instAgent_obj)
log.debug('new InstrumentAgent id = %s', instAgent_id)
self.imsclient.assign_instrument_model_to_instrument_agent(instModel_id, instAgent_id)
# Create InstrumentDevice
log.debug('test_activateInstrumentSample: Create instrument resource to represent the SBE37 (SA Req: L4-CI-SA-RQ-241) ')
instDevice_obj = IonObject(RT.InstrumentDevice,
name='SBE37IMDevice',
description="SBE37IMDevice",
serial_number="12345" )
instDevice_id = self.imsclient.create_instrument_device(instrument_device=instDevice_obj)
self.imsclient.assign_instrument_model_to_instrument_device(instModel_id, instDevice_id)
log.debug("test_activateInstrumentSample: new InstrumentDevice id = %s (SA Req: L4-CI-SA-RQ-241) " , instDevice_id)
port_agent_config = {
'device_addr': CFG.device.sbe37.host,
'device_port': CFG.device.sbe37.port,
'process_type': PortAgentProcessType.UNIX,
'binary_path': "port_agent",
'port_agent_addr': 'localhost',
'command_port': CFG.device.sbe37.port_agent_cmd_port,
'data_port': CFG.device.sbe37.port_agent_data_port,
'log_level': 5,
'type': PortAgentType.ETHERNET
}
instAgentInstance_obj = IonObject(RT.InstrumentAgentInstance, name='SBE37IMAgentInstance',
description="SBE37IMAgentInstance",
port_agent_config = port_agent_config,
alerts= [])
instAgentInstance_id = self.imsclient.create_instrument_agent_instance(instAgentInstance_obj,
instAgent_id,
instDevice_id)
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
parsed_pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
parsed_stream_def_id = self.pubsubcli.create_stream_definition(name='parsed', parameter_dictionary_id=parsed_pdict_id)
raw_pdict_id = self.dataset_management.read_parameter_dictionary_by_name('raw', id_only=True)
raw_stream_def_id = self.pubsubcli.create_stream_definition(name='raw', parameter_dictionary_id=raw_pdict_id)
#-------------------------------
# Create Raw and Parsed Data Products for the device
#-------------------------------
dp_obj = IonObject(RT.DataProduct,
name='the parsed data',
description='ctd stream test',
temporal_domain = tdom,
spatial_domain = sdom)
data_product_id1 = self.dpclient.create_data_product(data_product=dp_obj, stream_definition_id=parsed_stream_def_id)
log.debug( 'new dp_id = %s' , data_product_id1)
self.dpclient.activate_data_product_persistence(data_product_id=data_product_id1)
self.damsclient.assign_data_product(input_resource_id=instDevice_id, data_product_id=data_product_id1)
# Retrieve the id of the OUTPUT stream from the out Data Product
stream_ids, _ = self.rrclient.find_objects(data_product_id1, PRED.hasStream, None, True)
log.debug('Data product streams1 = %s', stream_ids)
# Retrieve the id of the OUTPUT stream from the out Data Product
dataset_ids, _ = self.rrclient.find_objects(data_product_id1, PRED.hasDataset, RT.Dataset, True)
log.debug('Data set for data_product_id1 = %s' , dataset_ids[0])
self.parsed_dataset = dataset_ids[0]
pid = self.create_logger('ctd_parsed', stream_ids[0] )
self.loggerpids.append(pid)
dp_obj = IonObject(RT.DataProduct,
name='the raw data',
description='raw stream test',
temporal_domain = tdom,
spatial_domain = sdom)
data_product_id2 = self.dpclient.create_data_product(data_product=dp_obj, stream_definition_id=raw_stream_def_id)
log.debug('new dp_id = %s', data_product_id2)
self.damsclient.assign_data_product(input_resource_id=instDevice_id, data_product_id=data_product_id2)
self.dpclient.activate_data_product_persistence(data_product_id=data_product_id2)
# setup notifications for the device and parsed data product
user_id_1 = self._create_notification( user_name='user_1', instrument_id=instDevice_id, product_id=data_product_id1)
#---------- Create notifications for another user and verify that we see different computed subscriptions for the two users ---------
user_id_2 = self._create_notification( user_name='user_2', instrument_id=instDevice_id, product_id=data_product_id2)
# Retrieve the id of the OUTPUT stream from the out Data Product
stream_ids, _ = self.rrclient.find_objects(data_product_id2, PRED.hasStream, None, True)
log.debug('Data product streams2 = %s' , str(stream_ids))
# Retrieve the id of the OUTPUT stream from the out Data Product
dataset_ids, _ = self.rrclient.find_objects(data_product_id2, PRED.hasDataset, RT.Dataset, True)
log.debug('Data set for data_product_id2 = %s' , dataset_ids[0])
self.raw_dataset = dataset_ids[0]
def start_instrument_agent():
self.imsclient.start_instrument_agent_instance(instrument_agent_instance_id=instAgentInstance_id)
gevent.joinall([gevent.spawn(start_instrument_agent)])
#cleanup
self.addCleanup(self.imsclient.stop_instrument_agent_instance,
instrument_agent_instance_id=instAgentInstance_id)
#wait for start
inst_agent_instance_obj = self.imsclient.read_instrument_agent_instance(instAgentInstance_id)
gate = AgentProcessStateGate(self.processdispatchclient.read_process,
instDevice_id,
ProcessStateEnum.RUNNING)
self.assertTrue(gate.await(30), "The instrument agent instance (%s) did not spawn in 30 seconds" %
gate.process_id)
#log.trace('Instrument agent instance obj: = %s' , str(inst_agent_instance_obj))
# Start a resource agent client to talk with the instrument agent.
self._ia_client = ResourceAgentClient(instDevice_id,
to_name=gate.process_id,
process=FakeProcess())
log.debug("test_activateInstrumentSample: got ia client %s" , str(self._ia_client))
cmd = AgentCommand(command=ResourceAgentEvent.INITIALIZE)
retval = self._ia_client.execute_agent(cmd)
log.debug("test_activateInstrumentSample: initialize %s" , str(retval))
state = self._ia_client.get_agent_state()
self.assertEqual(ResourceAgentState.INACTIVE, state)
log.debug("(L4-CI-SA-RQ-334): Sending go_active command ")
cmd = AgentCommand(command=ResourceAgentEvent.GO_ACTIVE)
reply = self._ia_client.execute_agent(cmd)
log.debug("test_activateInstrument: return value from go_active %s" , str(reply))
state = self._ia_client.get_agent_state()
self.assertEqual(ResourceAgentState.IDLE, state)
cmd = AgentCommand(command=ResourceAgentEvent.GET_RESOURCE_STATE)
retval = self._ia_client.execute_agent(cmd)
state = retval.result
log.debug("(L4-CI-SA-RQ-334): current state after sending go_active command %s" , str(state))
cmd = AgentCommand(command=ResourceAgentEvent.RUN)
reply = self._ia_client.execute_agent(cmd)
log.debug("test_activateInstrumentSample: run %s" , str(reply))
state = self._ia_client.get_agent_state()
self.assertEqual(ResourceAgentState.COMMAND, state)
cmd = AgentCommand(command=ResourceAgentEvent.PAUSE)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(ResourceAgentState.STOPPED, state)
cmd = AgentCommand(command=ResourceAgentEvent.RESUME)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(ResourceAgentState.COMMAND, state)
cmd = AgentCommand(command=ResourceAgentEvent.CLEAR)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(ResourceAgentState.IDLE, state)
cmd = AgentCommand(command=ResourceAgentEvent.RUN)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(ResourceAgentState.COMMAND, state)
for i in xrange(10):
monitor = DatasetMonitor(dataset_id=self.parsed_dataset)
self._ia_client.execute_resource(AgentCommand(command=SBE37ProtocolEvent.ACQUIRE_SAMPLE))
if not monitor.wait():
raise AssertionError('Failed on the %ith granule' % i)
monitor.stop()
# cmd = AgentCommand(command=SBE37ProtocolEvent.ACQUIRE_SAMPLE)
# for i in xrange(10):
# retval = self._ia_client.execute_resource(cmd)
# log.debug("test_activateInstrumentSample: return from sample %s" , str(retval))
log.debug( "test_activateInstrumentSample: calling reset ")
cmd = AgentCommand(command=ResourceAgentEvent.RESET)
reply = self._ia_client.execute_agent(cmd)
log.debug("test_activateInstrumentSample: return from reset %s" , str(reply))
#--------------------------------------------------------------------------------
# Now get the data in one chunk using an RPC Call to start_retreive
#--------------------------------------------------------------------------------
replay_data_raw = self.dataretrieverclient.retrieve(self.raw_dataset)
self.assertIsInstance(replay_data_raw, Granule)
rdt_raw = RecordDictionaryTool.load_from_granule(replay_data_raw)
log.debug("RDT raw: %s", str(rdt_raw.pretty_print()) )
self.assertIn('raw', rdt_raw)
raw_vals = rdt_raw['raw']
all_raw = "".join(raw_vals)
# look for 't' entered after a prompt -- ">t"
t_commands = all_raw.count(">t")
if 10 != t_commands:
log.error("%s raw_vals: ", len(raw_vals))
for i, r in enumerate(raw_vals): log.error("raw val %s: %s", i, [r])
self.fail("Expected 10 't' strings in raw_vals, got %s" % t_commands)
else:
log.debug("%s raw_vals: ", len(raw_vals))
for i, r in enumerate(raw_vals): log.debug("raw val %s: %s", i, [r])
replay_data_parsed = self.dataretrieverclient.retrieve(self.parsed_dataset)
self.assertIsInstance(replay_data_parsed, Granule)
rdt_parsed = RecordDictionaryTool.load_from_granule(replay_data_parsed)
log.debug("test_activateInstrumentSample: RDT parsed: %s", str(rdt_parsed.pretty_print()) )
self.assertIn('temp', rdt_parsed)
temp_vals = rdt_parsed['temp']
pressure_vals = rdt_parsed['pressure']
if 10 != len(temp_vals):
log.error("%s temp_vals: %s", len(temp_vals), temp_vals)
self.fail("Expected 10 temp_vals, got %s" % len(temp_vals))
log.debug("l4-ci-sa-rq-138")
"""
Physical resource control shall be subject to policy
Instrument management control capabilities shall be subject to policy
The actor accessing the control capabilities must be authorized to send commands.
note from maurice 2012-05-18: Talk to tim M to verify that this is policy. If it is then talk with Stephen to
get an example of a policy test and use that to create a test stub that will be
completed when we have instrument policies.
Tim M: The "actor", aka observatory operator, will access the instrument through ION.
"""
#--------------------------------------------------------------------------------
# Get the extended data product to see if it contains the granules
#--------------------------------------------------------------------------------
extended_product = self.dpclient.get_data_product_extension(data_product_id=data_product_id1, user_id=user_id_1)
def poller(extended_product):
return len(extended_product.computed.user_notification_requests.value) == 1
poll(poller, extended_product, timeout=30)
self._check_computed_attributes_of_extended_product( expected_data_product_id = data_product_id1, extended_data_product = extended_product)
#--------------------------------------------------------------------------------
# Get the extended instrument
#--------------------------------------------------------------------------------
extended_instrument = self.imsclient.get_instrument_device_extension(instrument_device_id=instDevice_id, user_id=user_id_1)
#--------------------------------------------------------------------------------
# For the second user, check the extended data product and the extended intrument
#--------------------------------------------------------------------------------
extended_product = self.dpclient.get_data_product_extension(data_product_id=data_product_id2, user_id=user_id_2)
self._check_computed_attributes_of_extended_product(expected_data_product_id = data_product_id2, extended_data_product = extended_product)
#--------------------------------------------------------------------------------
# Get the extended instrument
#--------------------------------------------------------------------------------
extended_instrument = self.imsclient.get_instrument_device_extension(instrument_device_id=instDevice_id, user_id=user_id_2)
self._check_computed_attributes_of_extended_instrument(expected_instrument_device_id = instDevice_id, extended_instrument = extended_instrument)
#--------------------------------------------------------------------------------
# Deactivate loggers
#--------------------------------------------------------------------------------
for pid in self.loggerpids:
self.processdispatchclient.cancel_process(pid)
self.dpclient.delete_data_product(data_product_id1)
self.dpclient.delete_data_product(data_product_id2)
class DatasetManagementIntTest(IonIntegrationTestCase):
def setUp(self):
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.resource_registry = ResourceRegistryServiceClient()
self.dataset_management = DatasetManagementServiceClient()
def test_dataset_crud(self):
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
tdom, sdom = time_series_domain()
dataset_id = self.dataset_management.create_dataset(name='ctd_dataset', parameter_dictionary_id=pdict_id, spatial_domain=sdom.dump(), temporal_domain=tdom.dump())
ds_obj = self.dataset_management.read_dataset(dataset_id)
self.assertEquals(ds_obj.name, 'ctd_dataset')
ds_obj.name = 'something different'
self.dataset_management.update_dataset(ds_obj)
self.dataset_management.register_dataset(dataset_id)
ds_obj2 = self.dataset_management.read_dataset(dataset_id)
self.assertEquals(ds_obj.name, ds_obj2.name)
self.assertTrue(ds_obj2.registered)
def test_context_crud(self):
context_ids = self.create_contexts()
context_id = context_ids.pop()
context = DatasetManagementService.get_parameter_context(context_id)
self.assertIsInstance(context, ParameterContext)
self.assertEquals(context.identifier, context_id)
self.dataset_management.delete_parameter_context(context_id)
with self.assertRaises(NotFound):
self.dataset_management.read_parameter_context(context_id)
def test_pdict_crud(self):
context_ids = self.create_contexts()
pdict_res_id = self.dataset_management.create_parameter_dictionary(name='pdict1', parameter_context_ids=context_ids, temporal_context='time')
pdict_contexts = self.dataset_management.read_parameter_contexts(parameter_dictionary_id=pdict_res_id, id_only=True)
pdict = DatasetManagementService.get_parameter_dictionary(pdict_res_id)
self.assertIsInstance(pdict, ParameterDictionary)
self.assertTrue('time_test' in pdict)
self.assertEquals(pdict.identifier, pdict_res_id)
self.assertEquals(set(pdict_contexts), set(context_ids))
self.dataset_management.delete_parameter_dictionary(parameter_dictionary_id=pdict_res_id)
with self.assertRaises(NotFound):
self.dataset_management.read_parameter_dictionary(parameter_dictionary_id=pdict_res_id)
def create_contexts(self):
context_ids = []
cond_ctxt = ParameterContext('conductivity_test', param_type=QuantityType(value_encoding=np.float32))
cond_ctxt.uom = 'unknown'
cond_ctxt.fill_value = 0e0
context_ids.append(self.dataset_management.create_parameter_context(name='conductivity_test', parameter_context=cond_ctxt.dump()))
pres_ctxt = ParameterContext('pressure_test', param_type=QuantityType(value_encoding=np.float32))
pres_ctxt.uom = 'Pascal'
pres_ctxt.fill_value = 0x0
context_ids.append(self.dataset_management.create_parameter_context(name='pressure_test', parameter_context=pres_ctxt.dump()))
sal_ctxt = ParameterContext('salinity_test', param_type=QuantityType(value_encoding=np.float32))
sal_ctxt.uom = 'PSU'
sal_ctxt.fill_value = 0x0
context_ids.append(self.dataset_management.create_parameter_context(name='salinity_test', parameter_context=sal_ctxt.dump()))
temp_ctxt = ParameterContext('temp_test', param_type=QuantityType(value_encoding=np.float32))
temp_ctxt.uom = 'degree_Celsius'
temp_ctxt.fill_value = 0e0
context_ids.append(self.dataset_management.create_parameter_context(name='temp_test', parameter_context=temp_ctxt.dump()))
t_ctxt = ParameterContext('time_test', param_type=QuantityType(value_encoding=np.int64))
t_ctxt.uom = 'seconds since 1970-01-01'
t_ctxt.fill_value = 0x0
context_ids.append(self.dataset_management.create_parameter_context(name='time_test', parameter_context=t_ctxt.dump()))
return context_ids
class TestDMEnd2End(IonIntegrationTestCase):
def setUp(self): # Love the non pep-8 convention
self._start_container()
self.container.start_rel_from_url("res/deploy/r2deploy.yml")
self.process_dispatcher = ProcessDispatcherServiceClient()
self.pubsub_management = PubsubManagementServiceClient()
self.resource_registry = ResourceRegistryServiceClient()
self.dataset_management = DatasetManagementServiceClient()
self.ingestion_management = IngestionManagementServiceClient()
self.data_retriever = DataRetrieverServiceClient()
self.pids = []
self.event = Event()
self.exchange_space_name = "test_granules"
self.exchange_point_name = "science_data"
self.i = 0
self.purge_queues()
self.queue_buffer = []
self.streams = []
self.addCleanup(self.stop_all_ingestion)
def purge_queues(self):
xn = self.container.ex_manager.create_xn_queue("science_granule_ingestion")
xn.purge()
def tearDown(self):
self.purge_queues()
for pid in self.pids:
self.container.proc_manager.terminate_process(pid)
IngestionManagementIntTest.clean_subscriptions()
for queue in self.queue_buffer:
if isinstance(queue, ExchangeNameQueue):
queue.delete()
elif isinstance(queue, str):
xn = self.container.ex_manager.create_xn_queue(queue)
xn.delete()
# --------------------------------------------------------------------------------
# Helper/Utility methods
# --------------------------------------------------------------------------------
def create_dataset(self, parameter_dict_id=""):
"""
Creates a time-series dataset
"""
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
if not parameter_dict_id:
parameter_dict_id = self.dataset_management.read_parameter_dictionary_by_name(
"ctd_parsed_param_dict", id_only=True
)
dataset_id = self.dataset_management.create_dataset(
"test_dataset_%i" % self.i,
parameter_dictionary_id=parameter_dict_id,
spatial_domain=sdom,
temporal_domain=tdom,
)
return dataset_id
def get_datastore(self, dataset_id):
"""
Gets an instance of the datastore
This method is primarily used to defeat a bug where integration tests in multiple containers may sometimes
delete a CouchDB datastore and the other containers are unaware of the new state of the datastore.
"""
dataset = self.dataset_management.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def get_ingestion_config(self):
"""
Grab the ingestion configuration from the resource registry
"""
# The ingestion configuration should have been created by the bootstrap service
# which is configured through r2deploy.yml
ingest_configs, _ = self.resource_registry.find_resources(restype=RT.IngestionConfiguration, id_only=True)
return ingest_configs[0]
def launch_producer(self, stream_id=""):
"""
Launch the producer
"""
pid = self.container.spawn_process(
"better_data_producer",
"ion.processes.data.example_data_producer",
"BetterDataProducer",
{"process": {"stream_id": stream_id}},
)
self.pids.append(pid)
def make_simple_dataset(self):
"""
Makes a stream, a stream definition and a dataset, the essentials for most of these tests
"""
pdict_id = self.dataset_management.read_parameter_dictionary_by_name("ctd_parsed_param_dict", id_only=True)
stream_def_id = self.pubsub_management.create_stream_definition("ctd data", parameter_dictionary_id=pdict_id)
stream_id, route = self.pubsub_management.create_stream(
"ctd stream %i" % self.i, "xp1", stream_definition_id=stream_def_id
)
dataset_id = self.create_dataset(pdict_id)
self.get_datastore(dataset_id)
self.i += 1
return stream_id, route, stream_def_id, dataset_id
def publish_hifi(self, stream_id, stream_route, offset=0):
"""
Publish deterministic data
"""
pub = StandaloneStreamPublisher(stream_id, stream_route)
stream_def = self.pubsub_management.read_stream_definition(stream_id=stream_id)
stream_def_id = stream_def._id
rdt = RecordDictionaryTool(stream_definition_id=stream_def_id)
rdt["time"] = np.arange(10) + (offset * 10)
rdt["temp"] = np.arange(10) + (offset * 10)
pub.publish(rdt.to_granule())
def publish_fake_data(self, stream_id, route):
"""
Make four granules
"""
for i in xrange(4):
self.publish_hifi(stream_id, route, i)
def start_ingestion(self, stream_id, dataset_id):
"""
Starts ingestion/persistence for a given dataset
"""
ingest_config_id = self.get_ingestion_config()
self.ingestion_management.persist_data_stream(
stream_id=stream_id, ingestion_configuration_id=ingest_config_id, dataset_id=dataset_id
)
def stop_ingestion(self, stream_id):
ingest_config_id = self.get_ingestion_config()
self.ingestion_management.unpersist_data_stream(
stream_id=stream_id, ingestion_configuration_id=ingest_config_id
)
def stop_all_ingestion(self):
try:
[self.stop_ingestion(sid) for sid in self.streams]
except:
pass
def validate_granule_subscription(self, msg, route, stream_id):
"""
Validation for granule format
"""
if msg == {}:
return
rdt = RecordDictionaryTool.load_from_granule(msg)
log.info("%s", rdt.pretty_print())
self.assertIsInstance(msg, Granule, "Message is improperly formatted. (%s)" % type(msg))
self.event.set()
def wait_until_we_have_enough_granules(self, dataset_id="", data_size=40):
"""
Loops until there is a sufficient amount of data in the dataset
"""
done = False
with gevent.Timeout(40):
while not done:
extents = self.dataset_management.dataset_extents(dataset_id, "time")[0]
granule = self.data_retriever.retrieve_last_data_points(dataset_id, 1)
rdt = RecordDictionaryTool.load_from_granule(granule)
if rdt["time"] and rdt["time"][0] != rdt._pdict.get_context("time").fill_value and extents >= data_size:
done = True
else:
gevent.sleep(0.2)
# --------------------------------------------------------------------------------
# Test Methods
# --------------------------------------------------------------------------------
@attr("SMOKE")
def test_dm_end_2_end(self):
# --------------------------------------------------------------------------------
# Set up a stream and have a mock instrument (producer) send data
# --------------------------------------------------------------------------------
self.event.clear()
# Get a precompiled parameter dictionary with basic ctd fields
pdict_id = self.dataset_management.read_parameter_dictionary_by_name("ctd_parsed_param_dict", id_only=True)
context_ids = self.dataset_management.read_parameter_contexts(pdict_id, id_only=True)
# Add a field that supports binary data input.
bin_context = ParameterContext("binary", param_type=ArrayType())
context_ids.append(self.dataset_management.create_parameter_context("binary", bin_context.dump()))
# Add another field that supports dictionary elements.
rec_context = ParameterContext("records", param_type=RecordType())
context_ids.append(self.dataset_management.create_parameter_context("records", rec_context.dump()))
pdict_id = self.dataset_management.create_parameter_dictionary(
"replay_pdict", parameter_context_ids=context_ids, temporal_context="time"
)
stream_definition = self.pubsub_management.create_stream_definition(
"ctd data", parameter_dictionary_id=pdict_id
)
stream_id, route = self.pubsub_management.create_stream(
"producer", exchange_point=self.exchange_point_name, stream_definition_id=stream_definition
)
# --------------------------------------------------------------------------------
# Start persisting the data on the stream
# - Get the ingestion configuration from the resource registry
# - Create the dataset
# - call persist_data_stream to setup the subscription for the ingestion workers
# on the stream that you specify which causes the data to be persisted
# --------------------------------------------------------------------------------
ingest_config_id = self.get_ingestion_config()
dataset_id = self.create_dataset(pdict_id)
self.ingestion_management.persist_data_stream(
stream_id=stream_id, ingestion_configuration_id=ingest_config_id, dataset_id=dataset_id
)
# --------------------------------------------------------------------------------
# Now the granules are ingesting and persisted
# --------------------------------------------------------------------------------
self.launch_producer(stream_id)
self.wait_until_we_have_enough_granules(dataset_id, 40)
# --------------------------------------------------------------------------------
# Now get the data in one chunk using an RPC Call to start_retreive
# --------------------------------------------------------------------------------
replay_data = self.data_retriever.retrieve(dataset_id)
self.assertIsInstance(replay_data, Granule)
rdt = RecordDictionaryTool.load_from_granule(replay_data)
self.assertTrue((rdt["time"][:10] == np.arange(10)).all(), "%s" % rdt["time"][:])
self.assertTrue((rdt["binary"][:10] == np.array(["hi"] * 10, dtype="object")).all())
# --------------------------------------------------------------------------------
# Now to try the streamed approach
# --------------------------------------------------------------------------------
replay_stream_id, replay_route = self.pubsub_management.create_stream(
"replay_out", exchange_point=self.exchange_point_name, stream_definition_id=stream_definition
)
self.replay_id, process_id = self.data_retriever.define_replay(
dataset_id=dataset_id, stream_id=replay_stream_id
)
log.info("Process ID: %s", process_id)
replay_client = ReplayClient(process_id)
# --------------------------------------------------------------------------------
# Create the listening endpoint for the the retriever to talk to
# --------------------------------------------------------------------------------
xp = self.container.ex_manager.create_xp(self.exchange_point_name)
subscriber = StandaloneStreamSubscriber(self.exchange_space_name, self.validate_granule_subscription)
self.queue_buffer.append(self.exchange_space_name)
subscriber.start()
subscriber.xn.bind(replay_route.routing_key, xp)
self.data_retriever.start_replay_agent(self.replay_id)
self.assertTrue(replay_client.await_agent_ready(5), "The process never launched")
replay_client.start_replay()
self.assertTrue(self.event.wait(10))
subscriber.stop()
self.data_retriever.cancel_replay_agent(self.replay_id)
# --------------------------------------------------------------------------------
# Test the slicing capabilities
# --------------------------------------------------------------------------------
granule = self.data_retriever.retrieve(dataset_id=dataset_id, query={"tdoa": slice(0, 5)})
rdt = RecordDictionaryTool.load_from_granule(granule)
b = rdt["time"] == np.arange(5)
self.assertTrue(b.all() if not isinstance(b, bool) else b)
self.streams.append(stream_id)
self.stop_ingestion(stream_id)
@unittest.skip("Doesnt work")
@attr("LOCOINT")
@unittest.skipIf(os.getenv("CEI_LAUNCH_TEST", False), "Skip test while in CEI LAUNCH mode")
def test_replay_pause(self):
# Get a precompiled parameter dictionary with basic ctd fields
pdict_id = self.dataset_management.read_parameter_dictionary_by_name("ctd_parsed_param_dict", id_only=True)
context_ids = self.dataset_management.read_parameter_contexts(pdict_id, id_only=True)
# Add a field that supports binary data input.
bin_context = ParameterContext("binary", param_type=ArrayType())
context_ids.append(self.dataset_management.create_parameter_context("binary", bin_context.dump()))
# Add another field that supports dictionary elements.
rec_context = ParameterContext("records", param_type=RecordType())
context_ids.append(self.dataset_management.create_parameter_context("records", rec_context.dump()))
pdict_id = self.dataset_management.create_parameter_dictionary(
"replay_pdict", parameter_context_ids=context_ids, temporal_context="time"
)
stream_def_id = self.pubsub_management.create_stream_definition(
"replay_stream", parameter_dictionary_id=pdict_id
)
replay_stream, replay_route = self.pubsub_management.create_stream(
"replay", "xp1", stream_definition_id=stream_def_id
)
dataset_id = self.create_dataset(pdict_id)
scov = DatasetManagementService._get_coverage(dataset_id)
bb = CoverageCraft(scov)
bb.rdt["time"] = np.arange(100)
bb.rdt["temp"] = np.random.random(100) + 30
bb.sync_with_granule()
DatasetManagementService._persist_coverage(
dataset_id, bb.coverage
) # This invalidates it for multi-host configurations
# Set up the subscriber to verify the data
subscriber = StandaloneStreamSubscriber(self.exchange_space_name, self.validate_granule_subscription)
xp = self.container.ex_manager.create_xp("xp1")
self.queue_buffer.append(self.exchange_space_name)
subscriber.start()
subscriber.xn.bind(replay_route.routing_key, xp)
# Set up the replay agent and the client wrapper
# 1) Define the Replay (dataset and stream to publish on)
self.replay_id, process_id = self.data_retriever.define_replay(dataset_id=dataset_id, stream_id=replay_stream)
# 2) Make a client to the interact with the process (optionall provide it a process to bind with)
replay_client = ReplayClient(process_id)
# 3) Start the agent (launch the process)
self.data_retriever.start_replay_agent(self.replay_id)
# 4) Start replaying...
replay_client.start_replay()
# Wait till we get some granules
self.assertTrue(self.event.wait(5))
# We got granules, pause the replay, clear the queue and allow the process to finish consuming
replay_client.pause_replay()
gevent.sleep(1)
subscriber.xn.purge()
self.event.clear()
# Make sure there's no remaining messages being consumed
self.assertFalse(self.event.wait(1))
# Resume the replay and wait until we start getting granules again
replay_client.resume_replay()
self.assertTrue(self.event.wait(5))
# Stop the replay, clear the queues
replay_client.stop_replay()
gevent.sleep(1)
subscriber.xn.purge()
self.event.clear()
# Make sure that it did indeed stop
self.assertFalse(self.event.wait(1))
subscriber.stop()
def test_retrieve_and_transform(self):
# Make a simple dataset and start ingestion, pretty standard stuff.
ctd_stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
self.start_ingestion(ctd_stream_id, dataset_id)
# Stream definition for the salinity data
salinity_pdict_id = self.dataset_management.read_parameter_dictionary_by_name(
"ctd_parsed_param_dict", id_only=True
)
sal_stream_def_id = self.pubsub_management.create_stream_definition(
"sal data", parameter_dictionary_id=salinity_pdict_id
)
rdt = RecordDictionaryTool(stream_definition_id=stream_def_id)
rdt["time"] = np.arange(10)
rdt["temp"] = np.random.randn(10) * 10 + 30
rdt["conductivity"] = np.random.randn(10) * 2 + 10
rdt["pressure"] = np.random.randn(10) * 1 + 12
publisher = StandaloneStreamPublisher(ctd_stream_id, route)
publisher.publish(rdt.to_granule())
rdt["time"] = np.arange(10, 20)
publisher.publish(rdt.to_granule())
self.wait_until_we_have_enough_granules(dataset_id, 20)
granule = self.data_retriever.retrieve(
dataset_id,
None,
None,
"ion.processes.data.transforms.ctd.ctd_L2_salinity",
"CTDL2SalinityTransformAlgorithm",
kwargs=dict(params=sal_stream_def_id),
)
rdt = RecordDictionaryTool.load_from_granule(granule)
for i in rdt["salinity"]:
self.assertNotEquals(i, 0)
self.streams.append(ctd_stream_id)
self.stop_ingestion(ctd_stream_id)
def test_last_granule(self):
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
self.start_ingestion(stream_id, dataset_id)
self.publish_hifi(stream_id, route, 0)
self.publish_hifi(stream_id, route, 1)
self.wait_until_we_have_enough_granules(dataset_id, 20) # I just need two
success = False
def verifier():
replay_granule = self.data_retriever.retrieve_last_data_points(dataset_id, 10)
rdt = RecordDictionaryTool.load_from_granule(replay_granule)
comp = rdt["time"] == np.arange(10) + 10
if not isinstance(comp, bool):
return comp.all()
return False
success = poll(verifier)
self.assertTrue(success)
success = False
def verify_points():
replay_granule = self.data_retriever.retrieve_last_data_points(dataset_id, 5)
rdt = RecordDictionaryTool.load_from_granule(replay_granule)
comp = rdt["time"] == np.arange(15, 20)
if not isinstance(comp, bool):
return comp.all()
return False
success = poll(verify_points)
self.assertTrue(success)
self.streams.append(stream_id)
self.stop_ingestion(stream_id)
def test_replay_with_parameters(self):
# --------------------------------------------------------------------------------
# Create the configurations and the dataset
# --------------------------------------------------------------------------------
# Get a precompiled parameter dictionary with basic ctd fields
pdict_id = self.dataset_management.read_parameter_dictionary_by_name("ctd_parsed_param_dict", id_only=True)
context_ids = self.dataset_management.read_parameter_contexts(pdict_id, id_only=True)
# Add a field that supports binary data input.
bin_context = ParameterContext("binary", param_type=ArrayType())
context_ids.append(self.dataset_management.create_parameter_context("binary", bin_context.dump()))
# Add another field that supports dictionary elements.
rec_context = ParameterContext("records", param_type=RecordType())
context_ids.append(self.dataset_management.create_parameter_context("records", rec_context.dump()))
pdict_id = self.dataset_management.create_parameter_dictionary(
"replay_pdict", parameter_context_ids=context_ids, temporal_context="time"
)
stream_def_id = self.pubsub_management.create_stream_definition(
"replay_stream", parameter_dictionary_id=pdict_id
)
stream_id, route = self.pubsub_management.create_stream(
"replay_with_params", exchange_point=self.exchange_point_name, stream_definition_id=stream_def_id
)
config_id = self.get_ingestion_config()
dataset_id = self.create_dataset(pdict_id)
self.ingestion_management.persist_data_stream(
stream_id=stream_id, ingestion_configuration_id=config_id, dataset_id=dataset_id
)
# --------------------------------------------------------------------------------
# Coerce the datastore into existence (beats race condition)
# --------------------------------------------------------------------------------
self.get_datastore(dataset_id)
self.launch_producer(stream_id)
self.wait_until_we_have_enough_granules(dataset_id, 40)
query = {
"start_time": 0 - 2208988800,
"end_time": 20 - 2208988800,
"stride_time": 2,
"parameters": ["time", "temp"],
}
retrieved_data = self.data_retriever.retrieve(dataset_id=dataset_id, query=query)
rdt = RecordDictionaryTool.load_from_granule(retrieved_data)
comp = np.arange(0, 20, 2) == rdt["time"]
self.assertTrue(comp.all(), "%s" % rdt.pretty_print())
self.assertEquals(set(rdt.iterkeys()), set(["time", "temp"]))
extents = self.dataset_management.dataset_extents(dataset_id=dataset_id, parameters=["time", "temp"])
self.assertTrue(extents["time"] >= 20)
self.assertTrue(extents["temp"] >= 20)
self.streams.append(stream_id)
self.stop_ingestion(stream_id)
def test_repersist_data(self):
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
self.start_ingestion(stream_id, dataset_id)
self.publish_hifi(stream_id, route, 0)
self.publish_hifi(stream_id, route, 1)
self.wait_until_we_have_enough_granules(dataset_id, 20)
config_id = self.get_ingestion_config()
self.ingestion_management.unpersist_data_stream(stream_id=stream_id, ingestion_configuration_id=config_id)
self.ingestion_management.persist_data_stream(
stream_id=stream_id, ingestion_configuration_id=config_id, dataset_id=dataset_id
)
self.publish_hifi(stream_id, route, 2)
self.publish_hifi(stream_id, route, 3)
self.wait_until_we_have_enough_granules(dataset_id, 40)
success = False
with gevent.timeout.Timeout(5):
while not success:
replay_granule = self.data_retriever.retrieve(dataset_id)
rdt = RecordDictionaryTool.load_from_granule(replay_granule)
comp = rdt["time"] == np.arange(0, 40)
if not isinstance(comp, bool):
success = comp.all()
gevent.sleep(1)
self.assertTrue(success)
self.streams.append(stream_id)
self.stop_ingestion(stream_id)
@attr("LOCOINT")
@unittest.skipIf(
os.getenv("CEI_LAUNCH_TEST", False),
"Host requires file-system access to coverage files, CEI mode does not support.",
)
def test_correct_time(self):
# There are 2208988800 seconds between Jan 1 1900 and Jan 1 1970, i.e.
# the conversion factor between unix and NTP time
unix_now = np.floor(time.time())
ntp_now = unix_now + 2208988800
unix_ago = unix_now - 20
ntp_ago = unix_ago + 2208988800
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
coverage = DatasetManagementService._get_coverage(dataset_id)
coverage.insert_timesteps(20)
coverage.set_parameter_values("time", np.arange(ntp_ago, ntp_now))
temporal_bounds = self.dataset_management.dataset_temporal_bounds(dataset_id)
self.assertTrue(np.abs(temporal_bounds[0] - unix_ago) < 2)
self.assertTrue(np.abs(temporal_bounds[1] - unix_now) < 2)
@attr("LOCOINT")
@unittest.skipIf(
os.getenv("CEI_LAUNCH_TEST", False),
"Host requires file-system access to coverage files, CEI mode does not support.",
)
def test_empty_coverage_time(self):
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
coverage = DatasetManagementService._get_coverage(dataset_id)
temporal_bounds = self.dataset_management.dataset_temporal_bounds(dataset_id)
self.assertEquals([coverage.get_parameter_context("time").fill_value] * 2, temporal_bounds)
@attr("LOCOINT")
@unittest.skipIf(
os.getenv("CEI_LAUNCH_TEST", False),
"Host requires file-system access to coverage files, CEI mode does not support.",
)
def test_out_of_band_retrieve(self):
# Setup the environemnt
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
self.start_ingestion(stream_id, dataset_id)
# Fill the dataset
self.publish_fake_data(stream_id, route)
self.wait_until_we_have_enough_granules(dataset_id, 40)
# Retrieve the data
granule = DataRetrieverService.retrieve_oob(dataset_id)
rdt = RecordDictionaryTool.load_from_granule(granule)
self.assertTrue((rdt["time"] == np.arange(40)).all())
@attr("LOCOINT")
@unittest.skipIf(
os.getenv("CEI_LAUNCH_TEST", False),
"Host requires file-system access to coverage files, CEI mode does not support.",
)
def test_retrieve_cache(self):
DataRetrieverService._refresh_interval = 1
datasets = [self.make_simple_dataset() for i in xrange(10)]
for stream_id, route, stream_def_id, dataset_id in datasets:
coverage = DatasetManagementService._get_coverage(dataset_id)
coverage.insert_timesteps(10)
coverage.set_parameter_values("time", np.arange(10))
coverage.set_parameter_values("temp", np.arange(10))
# Verify cache hit and refresh
dataset_ids = [i[3] for i in datasets]
self.assertTrue(dataset_ids[0] not in DataRetrieverService._retrieve_cache)
DataRetrieverService._get_coverage(dataset_ids[0]) # Hit the chache
cov, age = DataRetrieverService._retrieve_cache[dataset_ids[0]]
# Verify that it was hit and it's now in there
self.assertTrue(dataset_ids[0] in DataRetrieverService._retrieve_cache)
gevent.sleep(DataRetrieverService._refresh_interval + 0.2)
DataRetrieverService._get_coverage(dataset_ids[0]) # Hit the chache
cov, age2 = DataRetrieverService._retrieve_cache[dataset_ids[0]]
self.assertTrue(age2 != age)
for dataset_id in dataset_ids:
DataRetrieverService._get_coverage(dataset_id)
self.assertTrue(dataset_ids[0] not in DataRetrieverService._retrieve_cache)
stream_id, route, stream_def, dataset_id = datasets[0]
self.start_ingestion(stream_id, dataset_id)
DataRetrieverService._get_coverage(dataset_id)
self.assertTrue(dataset_id in DataRetrieverService._retrieve_cache)
DataRetrieverService._refresh_interval = 100
self.publish_hifi(stream_id, route, 1)
self.wait_until_we_have_enough_granules(dataset_id, data_size=20)
event = gevent.event.Event()
with gevent.Timeout(20):
while not event.wait(0.1):
if dataset_id not in DataRetrieverService._retrieve_cache:
event.set()
self.assertTrue(event.is_set())
@unittest.skip("Outdated due to ingestion retry")
@attr("LOCOINT")
@unittest.skipIf(
os.getenv("CEI_LAUNCH_TEST", False),
"Host requires file-system access to coverage files, CEI mode does not support.",
)
def test_ingestion_failover(self):
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
self.start_ingestion(stream_id, dataset_id)
event = Event()
def cb(*args, **kwargs):
event.set()
sub = EventSubscriber(event_type="ExceptionEvent", callback=cb, origin="stream_exception")
sub.start()
self.publish_fake_data(stream_id, route)
self.wait_until_we_have_enough_granules(dataset_id, 40)
file_path = DatasetManagementService._get_coverage_path(dataset_id)
master_file = os.path.join(file_path, "%s_master.hdf5" % dataset_id)
with open(master_file, "w") as f:
f.write("this will crash HDF")
self.publish_hifi(stream_id, route, 5)
self.assertTrue(event.wait(10))
sub.stop()
class TestDataProductManagementServiceIntegration(IonIntegrationTestCase):
def setUp(self):
# Start container
#print 'instantiating container'
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.dpsc_cli = DataProductManagementServiceClient()
self.rrclient = ResourceRegistryServiceClient()
self.damsclient = DataAcquisitionManagementServiceClient()
self.pubsubcli = PubsubManagementServiceClient()
self.ingestclient = IngestionManagementServiceClient()
self.process_dispatcher = ProcessDispatcherServiceClient()
self.dataset_management = DatasetManagementServiceClient()
self.unsc = UserNotificationServiceClient()
self.data_retriever = DataRetrieverServiceClient()
#------------------------------------------
# Create the environment
#------------------------------------------
datastore_name = CACHE_DATASTORE_NAME
self.db = self.container.datastore_manager.get_datastore(datastore_name)
self.stream_def_id = self.pubsubcli.create_stream_definition(name='SBE37_CDM')
self.process_definitions = {}
ingestion_worker_definition = ProcessDefinition(name='ingestion worker')
ingestion_worker_definition.executable = {
'module':'ion.processes.data.ingestion.science_granule_ingestion_worker',
'class' :'ScienceGranuleIngestionWorker'
}
process_definition_id = self.process_dispatcher.create_process_definition(process_definition=ingestion_worker_definition)
self.process_definitions['ingestion_worker'] = process_definition_id
self.pids = []
self.exchange_points = []
self.exchange_names = []
#------------------------------------------------------------------------------------------------
# First launch the ingestors
#------------------------------------------------------------------------------------------------
self.exchange_space = 'science_granule_ingestion'
self.exchange_point = 'science_data'
config = DotDict()
config.process.datastore_name = 'datasets'
config.process.queue_name = self.exchange_space
self.exchange_names.append(self.exchange_space)
self.exchange_points.append(self.exchange_point)
pid = self.process_dispatcher.schedule_process(self.process_definitions['ingestion_worker'],configuration=config)
log.debug("the ingestion worker process id: %s", pid)
self.pids.append(pid)
self.addCleanup(self.cleaning_up)
def cleaning_up(self):
for pid in self.pids:
log.debug("number of pids to be terminated: %s", len(self.pids))
try:
self.process_dispatcher.cancel_process(pid)
log.debug("Terminated the process: %s", pid)
except:
log.debug("could not terminate the process id: %s" % pid)
IngestionManagementIntTest.clean_subscriptions()
for xn in self.exchange_names:
xni = self.container.ex_manager.create_xn_queue(xn)
xni.delete()
for xp in self.exchange_points:
xpi = self.container.ex_manager.create_xp(xp)
xpi.delete()
def get_datastore(self, dataset_id):
dataset = self.dataset_management.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
@attr('EXT')
@attr('PREP')
def test_create_data_product(self):
#------------------------------------------------------------------------------------------------
# create a stream definition for the data from the ctd simulator
#------------------------------------------------------------------------------------------------
parameter_dictionary = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict')
ctd_stream_def_id = self.pubsubcli.create_stream_definition(name='Simulated CTD data', parameter_dictionary_id=parameter_dictionary._id)
log.debug("Created stream def id %s" % ctd_stream_def_id)
#------------------------------------------------------------------------------------------------
# test creating a new data product w/o a stream definition
#------------------------------------------------------------------------------------------------
# Generic time-series data domain creation
tdom, sdom = time_series_domain()
dp_obj = IonObject(RT.DataProduct,
name='DP1',
description='some new dp',
temporal_domain = tdom.dump(),
spatial_domain = sdom.dump())
dp_obj.geospatial_bounds.geospatial_latitude_limit_north = 10.0
dp_obj.geospatial_bounds.geospatial_latitude_limit_south = -10.0
dp_obj.geospatial_bounds.geospatial_longitude_limit_east = 10.0
dp_obj.geospatial_bounds.geospatial_longitude_limit_west = -10.0
dp_obj.ooi_product_name = "PRODNAME"
#------------------------------------------------------------------------------------------------
# Create a set of ParameterContext objects to define the parameters in the coverage, add each to the ParameterDictionary
#------------------------------------------------------------------------------------------------
dp_id = self.dpsc_cli.create_data_product( data_product= dp_obj,
stream_definition_id=ctd_stream_def_id)
# Assert that the data product has an associated stream at this stage
stream_ids, _ = self.rrclient.find_objects(dp_id, PRED.hasStream, RT.Stream, True)
self.assertNotEquals(len(stream_ids), 0)
# Assert that the data product has an associated stream def at this stage
stream_ids, _ = self.rrclient.find_objects(dp_id, PRED.hasStreamDefinition, RT.StreamDefinition, True)
self.assertNotEquals(len(stream_ids), 0)
self.dpsc_cli.activate_data_product_persistence(dp_id)
dp_obj = self.dpsc_cli.read_data_product(dp_id)
self.assertIsNotNone(dp_obj)
self.assertEquals(dp_obj.geospatial_point_center.lat, 0.0)
log.debug('Created data product %s', dp_obj)
#------------------------------------------------------------------------------------------------
# test creating a new data product with a stream definition
#------------------------------------------------------------------------------------------------
log.debug('Creating new data product with a stream definition')
dp_obj = IonObject(RT.DataProduct,
name='DP2',
description='some new dp',
temporal_domain = tdom.dump(),
spatial_domain = sdom.dump())
dp_id2 = self.dpsc_cli.create_data_product(dp_obj, ctd_stream_def_id)
self.dpsc_cli.activate_data_product_persistence(dp_id2)
log.debug('new dp_id = %s' % dp_id2)
#------------------------------------------------------------------------------------------------
#make sure data product is associated with stream def
#------------------------------------------------------------------------------------------------
streamdefs = []
streams, _ = self.rrclient.find_objects(dp_id2, PRED.hasStream, RT.Stream, True)
for s in streams:
log.debug("Checking stream %s" % s)
sdefs, _ = self.rrclient.find_objects(s, PRED.hasStreamDefinition, RT.StreamDefinition, True)
for sd in sdefs:
log.debug("Checking streamdef %s" % sd)
streamdefs.append(sd)
self.assertIn(ctd_stream_def_id, streamdefs)
group_names = self.dpsc_cli.get_data_product_group_list()
self.assertIn("PRODNAME", group_names)
# test reading a non-existent data product
log.debug('reading non-existent data product')
with self.assertRaises(NotFound):
dp_obj = self.dpsc_cli.read_data_product('some_fake_id')
# update a data product (tests read also)
log.debug('Updating data product')
# first get the existing dp object
dp_obj = self.dpsc_cli.read_data_product(dp_id)
# now tweak the object
dp_obj.description = 'the very first dp'
dp_obj.geospatial_bounds.geospatial_latitude_limit_north = 20.0
dp_obj.geospatial_bounds.geospatial_latitude_limit_south = -20.0
dp_obj.geospatial_bounds.geospatial_longitude_limit_east = 20.0
dp_obj.geospatial_bounds.geospatial_longitude_limit_west = -20.0
# now write the dp back to the registry
update_result = self.dpsc_cli.update_data_product(dp_obj)
# now get the dp back to see if it was updated
dp_obj = self.dpsc_cli.read_data_product(dp_id)
self.assertEquals(dp_obj.description,'the very first dp')
self.assertEquals(dp_obj.geospatial_point_center.lat, 0.0)
log.debug('Updated data product %s', dp_obj)
#test extension
extended_product = self.dpsc_cli.get_data_product_extension(dp_id)
self.assertEqual(dp_id, extended_product._id)
self.assertEqual(ComputedValueAvailability.PROVIDED,
extended_product.computed.product_download_size_estimated.status)
self.assertEqual(0, extended_product.computed.product_download_size_estimated.value)
self.assertEqual(ComputedValueAvailability.PROVIDED,
extended_product.computed.parameters.status)
#log.debug("test_create_data_product: parameters %s" % extended_product.computed.parameters.value)
def ion_object_encoder(obj):
return obj.__dict__
#test prepare for create
data_product_data = self.dpsc_cli.prepare_data_product_support()
#print simplejson.dumps(data_product_data, default=ion_object_encoder, indent= 2)
self.assertEqual(data_product_data._id, "")
self.assertEqual(data_product_data.type_, OT.DataProductPrepareSupport)
self.assertEqual(len(data_product_data.associations['StreamDefinition'].resources), 2)
self.assertEqual(len(data_product_data.associations['Dataset'].resources), 0)
self.assertEqual(len(data_product_data.associations['StreamDefinition'].associated_resources), 0)
self.assertEqual(len(data_product_data.associations['Dataset'].associated_resources), 0)
#test prepare for update
data_product_data = self.dpsc_cli.prepare_data_product_support(dp_id)
#print simplejson.dumps(data_product_data, default=ion_object_encoder, indent= 2)
self.assertEqual(data_product_data._id, dp_id)
self.assertEqual(data_product_data.type_, OT.DataProductPrepareSupport)
self.assertEqual(len(data_product_data.associations['StreamDefinition'].resources), 2)
self.assertEqual(len(data_product_data.associations['Dataset'].resources), 1)
self.assertEqual(len(data_product_data.associations['StreamDefinition'].associated_resources), 1)
self.assertEqual(data_product_data.associations['StreamDefinition'].associated_resources[0].s, dp_id)
self.assertEqual(len(data_product_data.associations['Dataset'].associated_resources), 1)
self.assertEqual(data_product_data.associations['Dataset'].associated_resources[0].s, dp_id)
# now 'delete' the data product
log.debug("deleting data product: %s" % dp_id)
self.dpsc_cli.delete_data_product(dp_id)
# Assert that there are no associated streams leftover after deleting the data product
stream_ids, assoc_ids = self.rrclient.find_objects(dp_id, PRED.hasStream, RT.Stream, True)
self.assertEquals(len(stream_ids), 0)
self.assertEquals(len(assoc_ids), 0)
self.dpsc_cli.force_delete_data_product(dp_id)
# now try to get the deleted dp object
with self.assertRaises(NotFound):
dp_obj = self.dpsc_cli.read_data_product(dp_id)
# Get the events corresponding to the data product
ret = self.unsc.get_recent_events(resource_id=dp_id)
events = ret.value
for event in events:
log.debug("event time: %s" % event.ts_created)
self.assertTrue(len(events) > 0)
def test_data_product_stream_def(self):
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
ctd_stream_def_id = self.pubsubcli.create_stream_definition(name='Simulated CTD data', parameter_dictionary_id=pdict_id)
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
dp_obj = IonObject(RT.DataProduct,
name='DP1',
description='some new dp',
temporal_domain = tdom,
spatial_domain = sdom)
dp_id = self.dpsc_cli.create_data_product(data_product= dp_obj,
stream_definition_id=ctd_stream_def_id)
stream_def_id = self.dpsc_cli.get_data_product_stream_definition(dp_id)
self.assertEquals(ctd_stream_def_id, stream_def_id)
def test_derived_data_product(self):
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
ctd_stream_def_id = self.pubsubcli.create_stream_definition(name='ctd parsed', parameter_dictionary_id=pdict_id)
self.addCleanup(self.pubsubcli.delete_stream_definition, ctd_stream_def_id)
tdom, sdom = time_series_domain()
dp = DataProduct(name='Instrument DP', temporal_domain=tdom.dump(), spatial_domain=sdom.dump())
dp_id = self.dpsc_cli.create_data_product(dp, stream_definition_id=ctd_stream_def_id)
self.addCleanup(self.dpsc_cli.force_delete_data_product, dp_id)
self.dpsc_cli.activate_data_product_persistence(dp_id)
self.addCleanup(self.dpsc_cli.suspend_data_product_persistence, dp_id)
dataset_ids, _ = self.rrclient.find_objects(subject=dp_id, predicate=PRED.hasDataset, id_only=True)
if not dataset_ids:
raise NotFound("Data Product %s dataset does not exist" % str(dp_id))
dataset_id = dataset_ids[0]
# Make the derived data product
simple_stream_def_id = self.pubsubcli.create_stream_definition(name='TEMPWAT stream def', parameter_dictionary_id=pdict_id, available_fields=['time','temp'])
tempwat_dp = DataProduct(name='TEMPWAT')
tempwat_dp_id = self.dpsc_cli.create_data_product(tempwat_dp, stream_definition_id=simple_stream_def_id, parent_data_product_id=dp_id)
self.addCleanup(self.dpsc_cli.delete_data_product, tempwat_dp_id)
# Check that the streams associated with the data product are persisted with
stream_ids, _ = self.rrclient.find_objects(dp_id,PRED.hasStream,RT.Stream,True)
for stream_id in stream_ids:
self.assertTrue(self.ingestclient.is_persisted(stream_id))
stream_id = stream_ids[0]
route = self.pubsubcli.read_stream_route(stream_id=stream_id)
rdt = RecordDictionaryTool(stream_definition_id=ctd_stream_def_id)
rdt['time'] = np.arange(20)
rdt['temp'] = np.arange(20)
rdt['pressure'] = np.arange(20)
publisher = StandaloneStreamPublisher(stream_id,route)
dataset_modified = Event()
def cb(*args, **kwargs):
dataset_modified.set()
es = EventSubscriber(event_type=OT.DatasetModified, callback=cb, origin=dataset_id, auto_delete=True)
es.start()
self.addCleanup(es.stop)
publisher.publish(rdt.to_granule())
self.assertTrue(dataset_modified.wait(30))
tempwat_dataset_ids, _ = self.rrclient.find_objects(tempwat_dp_id, PRED.hasDataset, id_only=True)
tempwat_dataset_id = tempwat_dataset_ids[0]
granule = self.data_retriever.retrieve(tempwat_dataset_id, delivery_format=simple_stream_def_id)
rdt = RecordDictionaryTool.load_from_granule(granule)
np.testing.assert_array_equal(rdt['time'], np.arange(20))
self.assertEquals(set(rdt.fields), set(['time','temp']))
def test_activate_suspend_data_product(self):
#------------------------------------------------------------------------------------------------
# create a stream definition for the data from the ctd simulator
#------------------------------------------------------------------------------------------------
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
ctd_stream_def_id = self.pubsubcli.create_stream_definition(name='Simulated CTD data', parameter_dictionary_id=pdict_id)
log.debug("Created stream def id %s" % ctd_stream_def_id)
#------------------------------------------------------------------------------------------------
# test creating a new data product w/o a stream definition
#------------------------------------------------------------------------------------------------
# Construct temporal and spatial Coordinate Reference System objects
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
dp_obj = IonObject(RT.DataProduct,
name='DP1',
description='some new dp',
temporal_domain = tdom,
spatial_domain = sdom)
log.debug("Created an IonObject for a data product: %s" % dp_obj)
#------------------------------------------------------------------------------------------------
# Create a set of ParameterContext objects to define the parameters in the coverage, add each to the ParameterDictionary
#------------------------------------------------------------------------------------------------
dp_id = self.dpsc_cli.create_data_product(data_product= dp_obj,
stream_definition_id=ctd_stream_def_id)
#------------------------------------------------------------------------------------------------
# test activate and suspend data product persistence
#------------------------------------------------------------------------------------------------
self.dpsc_cli.activate_data_product_persistence(dp_id)
dp_obj = self.dpsc_cli.read_data_product(dp_id)
self.assertIsNotNone(dp_obj)
dataset_ids, _ = self.rrclient.find_objects(subject=dp_id, predicate=PRED.hasDataset, id_only=True)
if not dataset_ids:
raise NotFound("Data Product %s dataset does not exist" % str(dp_id))
dataset_id = dataset_ids[0]
# Check that the streams associated with the data product are persisted with
stream_ids, _ = self.rrclient.find_objects(dp_id,PRED.hasStream,RT.Stream,True)
for stream_id in stream_ids:
self.assertTrue(self.ingestclient.is_persisted(stream_id))
stream_id = stream_ids[0]
route = self.pubsubcli.read_stream_route(stream_id=stream_id)
rdt = RecordDictionaryTool(stream_definition_id=ctd_stream_def_id)
rdt['time'] = np.arange(20)
rdt['temp'] = np.arange(20)
publisher = StandaloneStreamPublisher(stream_id,route)
dataset_modified = Event()
def cb(*args, **kwargs):
dataset_modified.set()
es = EventSubscriber(event_type=OT.DatasetModified, callback=cb, origin=dataset_id, auto_delete=True)
es.start()
self.addCleanup(es.stop)
publisher.publish(rdt.to_granule())
self.assertTrue(dataset_modified.wait(30))
#--------------------------------------------------------------------------------
# Now get the data in one chunk using an RPC Call to start_retreive
#--------------------------------------------------------------------------------
replay_data = self.data_retriever.retrieve(dataset_ids[0])
self.assertIsInstance(replay_data, Granule)
log.debug("The data retriever was able to replay the dataset that was attached to the data product "
"we wanted to be persisted. Therefore the data product was indeed persisted with "
"otherwise we could not have retrieved its dataset using the data retriever. Therefore "
"this demonstration shows that L4-CI-SA-RQ-267 is satisfied: 'Data product management shall persist data products'")
data_product_object = self.rrclient.read(dp_id)
self.assertEquals(data_product_object.name,'DP1')
self.assertEquals(data_product_object.description,'some new dp')
log.debug("Towards L4-CI-SA-RQ-308: 'Data product management shall persist data product metadata'. "
" Attributes in create for the data product obj, name= '%s', description='%s', match those of object from the "
"resource registry, name='%s', desc='%s'" % (dp_obj.name, dp_obj.description,data_product_object.name,
data_product_object.description))
#------------------------------------------------------------------------------------------------
# test suspend data product persistence
#------------------------------------------------------------------------------------------------
self.dpsc_cli.suspend_data_product_persistence(dp_id)
dataset_modified.clear()
rdt['time'] = np.arange(20,40)
publisher.publish(rdt.to_granule())
self.assertFalse(dataset_modified.wait(2))
self.dpsc_cli.activate_data_product_persistence(dp_id)
dataset_modified.clear()
publisher.publish(rdt.to_granule())
self.assertTrue(dataset_modified.wait(30))
granule = self.data_retriever.retrieve(dataset_id)
rdt = RecordDictionaryTool.load_from_granule(granule)
np.testing.assert_array_almost_equal(rdt['time'], np.arange(40))
dataset_ids, _ = self.rrclient.find_objects(dp_id, PRED.hasDataset, id_only=True)
self.assertEquals(len(dataset_ids), 1)
self.dpsc_cli.suspend_data_product_persistence(dp_id)
self.dpsc_cli.force_delete_data_product(dp_id)
# now try to get the deleted dp object
with self.assertRaises(NotFound):
dp_obj = self.rrclient.read(dp_id)
def test_lookup_values(self):
ph = ParameterHelper(self.dataset_management, self.addCleanup)
pdict_id = ph.create_lookups()
stream_def_id = self.pubsubcli.create_stream_definition('lookup', parameter_dictionary_id=pdict_id)
self.addCleanup(self.pubsubcli.delete_stream_definition, stream_def_id)
data_product = DataProduct(name='lookup data product')
tdom, sdom = time_series_domain()
data_product.temporal_domain = tdom.dump()
data_product.spatial_domain = sdom.dump()
data_product_id = self.dpsc_cli.create_data_product(data_product, stream_definition_id=stream_def_id)
self.addCleanup(self.dpsc_cli.delete_data_product, data_product_id)
data_producer = DataProducer(name='producer')
data_producer.producer_context = DataProcessProducerContext()
data_producer.producer_context.configuration['qc_keys'] = ['offset_document']
data_producer_id, _ = self.rrclient.create(data_producer)
self.addCleanup(self.rrclient.delete, data_producer_id)
assoc,_ = self.rrclient.create_association(subject=data_product_id, object=data_producer_id, predicate=PRED.hasDataProducer)
self.addCleanup(self.rrclient.delete_association, assoc)
document_keys = self.damsclient.list_qc_references(data_product_id)
self.assertEquals(document_keys, ['offset_document'])
svm = StoredValueManager(self.container)
svm.stored_value_cas('offset_document', {'offset_a':2.0})
self.dpsc_cli.activate_data_product_persistence(data_product_id)
dataset_ids, _ = self.rrclient.find_objects(subject=data_product_id, predicate=PRED.hasDataset, id_only=True)
dataset_id = dataset_ids[0]
dataset_monitor = DatasetMonitor(dataset_id)
self.addCleanup(dataset_monitor.stop)
rdt = RecordDictionaryTool(stream_definition_id=stream_def_id)
rdt['time'] = [0]
rdt['temp'] = [20.]
granule = rdt.to_granule()
stream_ids, _ = self.rrclient.find_objects(subject=data_product_id, predicate=PRED.hasStream, id_only=True)
stream_id = stream_ids[0]
route = self.pubsubcli.read_stream_route(stream_id=stream_id)
publisher = StandaloneStreamPublisher(stream_id, route)
publisher.publish(granule)
self.assertTrue(dataset_monitor.event.wait(10))
granule = self.data_retriever.retrieve(dataset_id)
rdt2 = RecordDictionaryTool.load_from_granule(granule)
np.testing.assert_array_equal(rdt['temp'], rdt2['temp'])
np.testing.assert_array_almost_equal(rdt2['calibrated'], np.array([22.0]))
svm.stored_value_cas('updated_document', {'offset_a':3.0})
dataset_monitor = DatasetMonitor(dataset_id)
self.addCleanup(dataset_monitor.stop)
ep = EventPublisher(event_type=OT.ExternalReferencesUpdatedEvent)
ep.publish_event(origin=data_product_id, reference_keys=['updated_document'])
rdt = RecordDictionaryTool(stream_definition_id=stream_def_id)
rdt['time'] = [1]
rdt['temp'] = [20.]
granule = rdt.to_granule()
gevent.sleep(2) # Yield so that the event goes through
publisher.publish(granule)
self.assertTrue(dataset_monitor.event.wait(10))
granule = self.data_retriever.retrieve(dataset_id)
rdt2 = RecordDictionaryTool.load_from_granule(granule)
np.testing.assert_array_equal(rdt2['temp'],np.array([20.,20.]))
np.testing.assert_array_almost_equal(rdt2['calibrated'], np.array([22.0,23.0]))
class TestInstrumentManagementServiceIntegration(IonIntegrationTestCase):
def setUp(self):
# Start container
#print 'instantiating container'
self._start_container()
#container = Container()
#print 'starting container'
#container.start()
#print 'started container'
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.RR = ResourceRegistryServiceClient(node=self.container.node)
self.IMS = InstrumentManagementServiceClient(node=self.container.node)
self.IDS = IdentityManagementServiceClient(node=self.container.node)
self.PSC = PubsubManagementServiceClient(node=self.container.node)
self.DP = DataProductManagementServiceClient(node=self.container.node)
self.DAMS = DataAcquisitionManagementServiceClient(node=self.container.node)
self.DSC = DatasetManagementServiceClient(node=self.container.node)
self.PDC = ProcessDispatcherServiceClient(node=self.container.node)
self.RR2 = EnhancedResourceRegistryClient(self.RR)
# @unittest.skip('this test just for debugging setup')
# def test_just_the_setup(self):
# return
@attr('EXT')
def test_resources_associations_extensions(self):
"""
create one of each resource and association used by IMS
to guard against problems in ion-definitions
"""
#stuff we control
instrument_agent_instance_id, _ = self.RR.create(any_old(RT.InstrumentAgentInstance))
instrument_agent_id, _ = self.RR.create(any_old(RT.InstrumentAgent))
instrument_model_id, _ = self.RR.create(any_old(RT.InstrumentModel))
instrument_device_id, _ = self.RR.create(any_old(RT.InstrumentDevice))
platform_agent_instance_id, _ = self.RR.create(any_old(RT.PlatformAgentInstance))
platform_agent_id, _ = self.RR.create(any_old(RT.PlatformAgent))
platform_device_id, _ = self.RR.create(any_old(RT.PlatformDevice))
platform_model_id, _ = self.RR.create(any_old(RT.PlatformModel))
sensor_device_id, _ = self.RR.create(any_old(RT.SensorDevice))
sensor_model_id, _ = self.RR.create(any_old(RT.SensorModel))
#stuff we associate to
data_producer_id, _ = self.RR.create(any_old(RT.DataProducer))
org_id, _ = self.RR.create(any_old(RT.Org))
#instrument_agent_instance_id #is only a target
#instrument_agent
self.RR.create_association(instrument_agent_id, PRED.hasModel, instrument_model_id)
self.RR.create_association(instrument_agent_instance_id, PRED.hasAgentDefinition, instrument_agent_id)
#instrument_device
self.RR.create_association(instrument_device_id, PRED.hasModel, instrument_model_id)
self.RR.create_association(instrument_device_id, PRED.hasAgentInstance, instrument_agent_instance_id)
self.RR.create_association(instrument_device_id, PRED.hasDataProducer, data_producer_id)
self.RR.create_association(instrument_device_id, PRED.hasDevice, sensor_device_id)
self.RR.create_association(org_id, PRED.hasResource, instrument_device_id)
instrument_model_id #is only a target
platform_agent_instance_id #is only a target
#platform_agent
self.RR.create_association(platform_agent_id, PRED.hasModel, platform_model_id)
self.RR.create_association(platform_agent_instance_id, PRED.hasAgentDefinition, platform_agent_id)
#platform_device
self.RR.create_association(platform_device_id, PRED.hasModel, platform_model_id)
self.RR.create_association(platform_device_id, PRED.hasAgentInstance, platform_agent_instance_id)
self.RR.create_association(platform_device_id, PRED.hasDevice, instrument_device_id)
platform_model_id #is only a target
#sensor_device
self.RR.create_association(sensor_device_id, PRED.hasModel, sensor_model_id)
self.RR.create_association(sensor_device_id, PRED.hasDevice, instrument_device_id)
sensor_model_id #is only a target
#create a parsed product for this instrument output
tdom, sdom = time_series_domain()
tdom = tdom.dump()
sdom = sdom.dump()
dp_obj = IonObject(RT.DataProduct,
name='the parsed data',
description='ctd stream test',
processing_level_code='Parsed_Canonical',
temporal_domain = tdom,
spatial_domain = sdom)
pdict_id = self.DSC.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
parsed_stream_def_id = self.PSC.create_stream_definition(name='parsed', parameter_dictionary_id=pdict_id)
data_product_id1 = self.DP.create_data_product(data_product=dp_obj, stream_definition_id=parsed_stream_def_id)
log.debug( 'new dp_id = %s', data_product_id1)
self.DAMS.assign_data_product(input_resource_id=instrument_device_id, data_product_id=data_product_id1)
def addInstOwner(inst_id, subject):
actor_identity_obj = any_old(RT.ActorIdentity, {"name": subject})
user_id = self.IDS.create_actor_identity(actor_identity_obj)
user_info_obj = any_old(RT.UserInfo)
user_info_id = self.IDS.create_user_info(user_id, user_info_obj)
self.RR.create_association(inst_id, PRED.hasOwner, user_id)
#Testing multiple instrument owners
addInstOwner(instrument_device_id, "/DC=org/DC=cilogon/C=US/O=ProtectNetwork/CN=Roger Unwin A254")
addInstOwner(instrument_device_id, "/DC=org/DC=cilogon/C=US/O=ProtectNetwork/CN=Bob Cumbers A256")
extended_instrument = self.IMS.get_instrument_device_extension(instrument_device_id)
self.assertEqual(instrument_device_id, extended_instrument._id)
self.assertEqual(len(extended_instrument.owners), 2)
self.assertEqual(extended_instrument.instrument_model._id, instrument_model_id)
# Lifecycle
self.assertEquals(len(extended_instrument.lcstate_transitions), 7)
self.assertEquals(set(extended_instrument.lcstate_transitions.keys()), set(['enable', 'develop', 'deploy', 'retire', 'plan', 'integrate', 'announce']))
# Verify that computed attributes exist for the extended instrument
self.assertIsInstance(extended_instrument.computed.firmware_version, ComputedFloatValue)
self.assertIsInstance(extended_instrument.computed.last_data_received_datetime, ComputedFloatValue)
self.assertIsInstance(extended_instrument.computed.last_calibration_datetime, ComputedFloatValue)
self.assertIsInstance(extended_instrument.computed.uptime, ComputedStringValue)
self.assertIsInstance(extended_instrument.computed.power_status_roll_up, ComputedIntValue)
self.assertIsInstance(extended_instrument.computed.communications_status_roll_up, ComputedIntValue)
self.assertIsInstance(extended_instrument.computed.data_status_roll_up, ComputedIntValue)
self.assertIsInstance(extended_instrument.computed.location_status_roll_up, ComputedIntValue)
log.debug("extended_instrument.computed: %s", extended_instrument.computed)
#check model
inst_model_obj = self.RR.read(instrument_model_id)
self.assertEqual(inst_model_obj.name, extended_instrument.instrument_model.name)
#check agent instance
inst_agent_instance_obj = self.RR.read(instrument_agent_instance_id)
self.assertEqual(inst_agent_instance_obj.name, extended_instrument.agent_instance.name)
#check agent
inst_agent_obj = self.RR.read(instrument_agent_id)
#compound assoc return list of lists so check the first element
self.assertEqual(inst_agent_obj.name, extended_instrument.instrument_agent.name)
#check platform device
plat_device_obj = self.RR.read(platform_device_id)
self.assertEqual(plat_device_obj.name, extended_instrument.platform_device.name)
extended_platform = self.IMS.get_platform_device_extension(platform_device_id)
self.assertEqual(1, len(extended_platform.instrument_devices))
self.assertEqual(instrument_device_id, extended_platform.instrument_devices[0]._id)
self.assertEqual(1, len(extended_platform.instrument_models))
self.assertEqual(instrument_model_id, extended_platform.instrument_models[0]._id)
self.assertEquals(extended_platform.platform_agent._id, platform_agent_id)
self.assertEquals(len(extended_platform.lcstate_transitions), 7)
self.assertEquals(set(extended_platform.lcstate_transitions.keys()), set(['enable', 'develop', 'deploy', 'retire', 'plan', 'integrate', 'announce']))
#check sensor devices
self.assertEqual(1, len(extended_instrument.sensor_devices))
#check data_product_parameters_set
self.assertEqual(ComputedValueAvailability.PROVIDED,
extended_instrument.computed.data_product_parameters_set.status)
self.assertTrue( 'Parsed_Canonical' in extended_instrument.computed.data_product_parameters_set.value)
# the ctd parameters should include 'temp'
self.assertTrue( 'temp' in extended_instrument.computed.data_product_parameters_set.value['Parsed_Canonical'])
#none of these will work because there is no agent
self.assertEqual(ComputedValueAvailability.NOTAVAILABLE,
extended_instrument.computed.firmware_version.status)
# self.assertEqual(ComputedValueAvailability.NOTAVAILABLE,
# extended_instrument.computed.operational_state.status)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.power_status_roll_up.status)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.communications_status_roll_up.status)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.data_status_roll_up.status)
# self.assertEqual(StatusType.STATUS_OK,
# extended_instrument.computed.data_status_roll_up.value)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.location_status_roll_up.status)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.recent_events.status)
# self.assertEqual([], extended_instrument.computed.recent_events.value)
# cleanup
c = DotDict()
c.resource_registry = self.RR
self.RR2.pluck(instrument_agent_id)
self.RR2.pluck(instrument_model_id)
self.RR2.pluck(instrument_device_id)
self.RR2.pluck(platform_agent_id)
self.RR2.pluck(sensor_device_id)
self.IMS.force_delete_instrument_agent(instrument_agent_id)
self.IMS.force_delete_instrument_model(instrument_model_id)
self.IMS.force_delete_instrument_device(instrument_device_id)
self.IMS.force_delete_platform_agent_instance(platform_agent_instance_id)
self.IMS.force_delete_platform_agent(platform_agent_id)
self.IMS.force_delete_platform_device(platform_device_id)
self.IMS.force_delete_platform_model(platform_model_id)
self.IMS.force_delete_sensor_device(sensor_device_id)
self.IMS.force_delete_sensor_model(sensor_model_id)
#stuff we associate to
self.RR.delete(data_producer_id)
self.RR.delete(org_id)
def test_custom_attributes(self):
"""
Test assignment of custom attributes
"""
instrument_model_id, _ = self.RR.create(any_old(RT.InstrumentModel,
{"custom_attributes":
{"favorite_color": "attr desc goes here"}
}))
instrument_device_id, _ = self.RR.create(any_old(RT.InstrumentDevice,
{"custom_attributes":
{"favorite_color": "red",
"bogus_attr": "should raise warning"
}
}))
self.IMS.assign_instrument_model_to_instrument_device(instrument_model_id, instrument_device_id)
# cleanup
self.IMS.force_delete_instrument_device(instrument_device_id)
self.IMS.force_delete_instrument_model(instrument_model_id)
def _get_datastore(self, dataset_id):
dataset = self.DSC.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def test_resource_state_save_restore(self):
# Create InstrumentModel
instModel_obj = IonObject(RT.InstrumentModel,
name='SBE37IMModel',
description="SBE37IMModel")
instModel_id = self.IMS.create_instrument_model(instModel_obj)
log.debug( 'new InstrumentModel id = %s ', instModel_id)
# Create InstrumentAgent
raw_config = StreamConfiguration(stream_name='raw', parameter_dictionary_name='ctd_raw_param_dict', records_per_granule=2, granule_publish_rate=5 )
parsed_config = StreamConfiguration(stream_name='parsed', parameter_dictionary_name='ctd_parsed_param_dict', records_per_granule=2, granule_publish_rate=5 )
instAgent_obj = IonObject(RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
driver_uri="http://sddevrepo.oceanobservatories.org/releases/seabird_sbe37smb_ooicore-0.0.1-py2.7.egg",
stream_configurations = [raw_config, parsed_config] )
instAgent_id = self.IMS.create_instrument_agent(instAgent_obj)
log.debug( 'new InstrumentAgent id = %s', instAgent_id)
self.IMS.assign_instrument_model_to_instrument_agent(instModel_id, instAgent_id)
# Create InstrumentDevice
log.debug('test_activateInstrumentSample: Create instrument resource to represent the SBE37 '
+ '(SA Req: L4-CI-SA-RQ-241) ')
instDevice_obj = IonObject(RT.InstrumentDevice,
name='SBE37IMDevice',
description="SBE37IMDevice",
serial_number="12345" )
instDevice_id = self.IMS.create_instrument_device(instrument_device=instDevice_obj)
self.IMS.assign_instrument_model_to_instrument_device(instModel_id, instDevice_id)
log.debug("test_activateInstrumentSample: new InstrumentDevice id = %s (SA Req: L4-CI-SA-RQ-241) ",
instDevice_id)
port_agent_config = {
'device_addr': CFG.device.sbe37.host,
'device_port': CFG.device.sbe37.port,
'process_type': PortAgentProcessType.UNIX,
'binary_path': "port_agent",
'port_agent_addr': 'localhost',
'command_port': CFG.device.sbe37.port_agent_cmd_port,
'data_port': CFG.device.sbe37.port_agent_data_port,
'log_level': 5,
'type': PortAgentType.ETHERNET
}
instAgentInstance_obj = IonObject(RT.InstrumentAgentInstance, name='SBE37IMAgentInstance',
description="SBE37IMAgentInstance",
port_agent_config = port_agent_config)
instAgentInstance_id = self.IMS.create_instrument_agent_instance(instAgentInstance_obj,
instAgent_id,
instDevice_id)
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
spdict_id = self.DSC.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
parsed_stream_def_id = self.PSC.create_stream_definition(name='parsed', parameter_dictionary_id=spdict_id)
rpdict_id = self.DSC.read_parameter_dictionary_by_name('ctd_raw_param_dict', id_only=True)
raw_stream_def_id = self.PSC.create_stream_definition(name='raw', parameter_dictionary_id=rpdict_id)
#-------------------------------
# Create Raw and Parsed Data Products for the device
#-------------------------------
dp_obj = IonObject(RT.DataProduct,
name='the parsed data',
description='ctd stream test',
temporal_domain = tdom,
spatial_domain = sdom)
data_product_id1 = self.DP.create_data_product(data_product=dp_obj,
stream_definition_id=parsed_stream_def_id)
log.debug( 'new dp_id = %s', data_product_id1)
self.DAMS.assign_data_product(input_resource_id=instDevice_id, data_product_id=data_product_id1)
self.DP.activate_data_product_persistence(data_product_id=data_product_id1)
# Retrieve the id of the OUTPUT stream from the out Data Product
stream_ids, _ = self.RR.find_objects(data_product_id1, PRED.hasStream, None, True)
log.debug( 'Data product streams1 = %s', stream_ids)
# Retrieve the id of the OUTPUT stream from the out Data Product
dataset_ids, _ = self.RR.find_objects(data_product_id1, PRED.hasDataset, RT.Dataset, True)
log.debug( 'Data set for data_product_id1 = %s', dataset_ids[0])
self.parsed_dataset = dataset_ids[0]
#create the datastore at the beginning of each int test that persists data
dp_obj = IonObject(RT.DataProduct,
name='the raw data',
description='raw stream test',
temporal_domain = tdom,
spatial_domain = sdom)
data_product_id2 = self.DP.create_data_product(data_product=dp_obj,
stream_definition_id=raw_stream_def_id)
log.debug( 'new dp_id = %s', str(data_product_id2))
self.DAMS.assign_data_product(input_resource_id=instDevice_id, data_product_id=data_product_id2)
self.DP.activate_data_product_persistence(data_product_id=data_product_id2)
# spin up agent
self.IMS.start_instrument_agent_instance(instrument_agent_instance_id=instAgentInstance_id)
self.addCleanup(self.IMS.stop_instrument_agent_instance,
instrument_agent_instance_id=instAgentInstance_id)
#wait for start
instance_obj = self.IMS.read_instrument_agent_instance(instAgentInstance_id)
gate = ProcessStateGate(self.PDC.read_process,
instance_obj.agent_process_id,
ProcessStateEnum.RUNNING)
self.assertTrue(gate.await(30), "The instrument agent instance (%s) did not spawn in 30 seconds" %
instance_obj.agent_process_id)
# take snapshot of config
snap_id = self.IMS.save_resource_state(instDevice_id, "xyzzy snapshot")
snap_obj = self.RR.read_attachment(snap_id, include_content=True)
print "Saved config:"
print snap_obj.content
#modify config
instance_obj.driver_config["comms_config"] = "BAD_DATA"
self.RR.update(instance_obj)
#restore config
self.IMS.restore_resource_state(instDevice_id, snap_id)
instance_obj = self.RR.read(instAgentInstance_id)
self.assertNotEqual("BAD_DATA", instance_obj.driver_config["comms_config"])
self.DP.delete_data_product(data_product_id1)
self.DP.delete_data_product(data_product_id2)
def test_agent_instance_config(self):
"""
Verify that agent configurations are being built properly
"""
clients = DotDict()
clients.resource_registry = self.RR
clients.pubsub_management = self.PSC
clients.dataset_management = self.DSC
pconfig_builder = PlatformAgentConfigurationBuilder(clients)
iconfig_builder = InstrumentAgentConfigurationBuilder(clients)
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
org_obj = any_old(RT.Org)
org_id = self.RR2.create(org_obj)
inst_startup_config = {'startup': 'config'}
generic_alerts_config = {'lvl1': {'lvl2': 'lvl3val'}}
required_config_keys = [
'org_name',
'device_type',
'agent',
'driver_config',
'stream_config',
'startup_config',
'aparam_alert_config',
'children']
def verify_instrument_config(config, device_id):
for key in required_config_keys:
self.assertIn(key, config)
self.assertEqual(org_obj.name, config['org_name'])
self.assertEqual(RT.InstrumentDevice, config['device_type'])
self.assertIn('driver_config', config)
driver_config = config['driver_config']
expected_driver_fields = {'process_type': ('ZMQPyClassDriverLauncher',),
}
for k, v in expected_driver_fields.iteritems():
self.assertIn(k, driver_config)
self.assertEqual(v, driver_config[k])
self.assertEqual
self.assertEqual({'resource_id': device_id}, config['agent'])
self.assertEqual(inst_startup_config, config['startup_config'])
self.assertIn('aparam_alert_config', config)
self.assertEqual(generic_alerts_config, config['aparam_alert_config'])
self.assertIn('stream_config', config)
for key in ['children']:
self.assertEqual({}, config[key])
def verify_child_config(config, device_id, inst_device_id=None):
for key in required_config_keys:
self.assertIn(key, config)
self.assertEqual(org_obj.name, config['org_name'])
self.assertEqual(RT.PlatformDevice, config['device_type'])
self.assertEqual({'resource_id': device_id}, config['agent'])
self.assertIn('aparam_alert_config', config)
self.assertEqual(generic_alerts_config, config['aparam_alert_config'])
self.assertIn('stream_config', config)
self.assertIn('driver_config', config)
self.assertIn('foo', config['driver_config'])
self.assertEqual('bar', config['driver_config']['foo'])
self.assertIn('process_type', config['driver_config'])
self.assertEqual(('ZMQPyClassDriverLauncher',), config['driver_config']['process_type'])
if None is inst_device_id:
for key in ['children', 'startup_config']:
self.assertEqual({}, config[key])
else:
for key in ['startup_config']:
self.assertEqual({}, config[key])
self.assertIn(inst_device_id, config['children'])
verify_instrument_config(config['children'][inst_device_id], inst_device_id)
def verify_parent_config(config, parent_device_id, child_device_id, inst_device_id=None):
for key in required_config_keys:
self.assertIn(key, config)
self.assertEqual(org_obj.name, config['org_name'])
self.assertEqual(RT.PlatformDevice, config['device_type'])
self.assertIn('process_type', config['driver_config'])
self.assertEqual(('ZMQPyClassDriverLauncher',), config['driver_config']['process_type'])
self.assertEqual({'resource_id': parent_device_id}, config['agent'])
self.assertIn('aparam_alert_config', config)
self.assertEqual(generic_alerts_config, config['aparam_alert_config'])
self.assertIn('stream_config', config)
for key in ['startup_config']:
self.assertEqual({}, config[key])
self.assertIn(child_device_id, config['children'])
verify_child_config(config['children'][child_device_id], child_device_id, inst_device_id)
rpdict_id = self.DSC.read_parameter_dictionary_by_name('ctd_raw_param_dict', id_only=True)
raw_stream_def_id = self.PSC.create_stream_definition(name='raw', parameter_dictionary_id=rpdict_id)
#todo: create org and figure out which agent resource needs to get assigned to it
def _make_platform_agent_structure(agent_config=None):
if None is agent_config: agent_config = {}
# instance creation
platform_agent_instance_obj = any_old(RT.PlatformAgentInstance, {'driver_config': {'foo': 'bar'},
'alerts': generic_alerts_config})
platform_agent_instance_obj.agent_config = agent_config
platform_agent_instance_id = self.IMS.create_platform_agent_instance(platform_agent_instance_obj)
# agent creation
raw_config = StreamConfiguration(stream_name='raw', parameter_dictionary_name='ctd_raw_param_dict', records_per_granule=2, granule_publish_rate=5 )
platform_agent_obj = any_old(RT.PlatformAgent, {"stream_configurations":[raw_config]})
platform_agent_id = self.IMS.create_platform_agent(platform_agent_obj)
# device creation
platform_device_id = self.IMS.create_platform_device(any_old(RT.PlatformDevice))
# data product creation
dp_obj = any_old(RT.DataProduct, {"temporal_domain":tdom, "spatial_domain": sdom})
dp_id = self.DP.create_data_product(data_product=dp_obj, stream_definition_id=raw_stream_def_id)
self.DAMS.assign_data_product(input_resource_id=platform_device_id, data_product_id=dp_id)
self.DP.activate_data_product_persistence(data_product_id=dp_id)
# assignments
self.RR2.assign_platform_agent_instance_to_platform_device(platform_agent_instance_id, platform_device_id)
self.RR2.assign_platform_agent_to_platform_agent_instance(platform_agent_id, platform_agent_instance_id)
self.RR2.assign_platform_device_to_org_with_has_resource(platform_agent_instance_id, org_id)
return platform_agent_instance_id, platform_agent_id, platform_device_id
def _make_instrument_agent_structure(agent_config=None):
if None is agent_config: agent_config = {}
# instance creation
instrument_agent_instance_obj = any_old(RT.InstrumentAgentInstance, {"startup_config": inst_startup_config,
'alerts': generic_alerts_config})
instrument_agent_instance_obj.agent_config = agent_config
instrument_agent_instance_id = self.IMS.create_instrument_agent_instance(instrument_agent_instance_obj)
# agent creation
raw_config = StreamConfiguration(stream_name='raw',
parameter_dictionary_name='ctd_raw_param_dict',
records_per_granule=2,
granule_publish_rate=5 )
instrument_agent_obj = any_old(RT.InstrumentAgent, {"stream_configurations":[raw_config]})
instrument_agent_id = self.IMS.create_instrument_agent(instrument_agent_obj)
# device creation
instrument_device_id = self.IMS.create_instrument_device(any_old(RT.InstrumentDevice))
# data product creation
dp_obj = any_old(RT.DataProduct, {"temporal_domain":tdom, "spatial_domain": sdom})
dp_id = self.DP.create_data_product(data_product=dp_obj, stream_definition_id=raw_stream_def_id)
self.DAMS.assign_data_product(input_resource_id=instrument_device_id, data_product_id=dp_id)
self.DP.activate_data_product_persistence(data_product_id=dp_id)
# assignments
self.RR2.assign_instrument_agent_instance_to_instrument_device(instrument_agent_instance_id, instrument_device_id)
self.RR2.assign_instrument_agent_to_instrument_agent_instance(instrument_agent_id, instrument_agent_instance_id)
self.RR2.assign_instrument_device_to_org_with_has_resource(instrument_agent_instance_id, org_id)
return instrument_agent_instance_id, instrument_agent_id, instrument_device_id
# can't do anything without an agent instance obj
log.debug("Testing that preparing a launcher without agent instance raises an error")
self.assertRaises(AssertionError, pconfig_builder.prepare, will_launch=False)
log.debug("Making the structure for a platform agent, which will be the child")
platform_agent_instance_child_id, _, platform_device_child_id = _make_platform_agent_structure()
platform_agent_instance_child_obj = self.RR2.read(platform_agent_instance_child_id)
log.debug("Preparing a valid agent instance launch, for config only")
pconfig_builder.set_agent_instance_object(platform_agent_instance_child_obj)
child_config = pconfig_builder.prepare(will_launch=False)
verify_child_config(child_config, platform_device_child_id)
log.debug("Making the structure for a platform agent, which will be the parent")
platform_agent_instance_parent_id, _, platform_device_parent_id = _make_platform_agent_structure()
platform_agent_instance_parent_obj = self.RR2.read(platform_agent_instance_parent_id)
log.debug("Testing child-less parent as a child config")
pconfig_builder.set_agent_instance_object(platform_agent_instance_parent_obj)
parent_config = pconfig_builder.prepare(will_launch=False)
verify_child_config(parent_config, platform_device_parent_id)
log.debug("assigning child platform to parent")
self.RR2.assign_platform_device_to_platform_device(platform_device_child_id, platform_device_parent_id)
child_device_ids = self.RR2.find_platform_device_ids_of_device(platform_device_parent_id)
self.assertNotEqual(0, len(child_device_ids))
log.debug("Testing parent + child as parent config")
pconfig_builder.set_agent_instance_object(platform_agent_instance_parent_obj)
parent_config = pconfig_builder.prepare(will_launch=False)
verify_parent_config(parent_config, platform_device_parent_id, platform_device_child_id)
log.debug("making the structure for an instrument agent")
instrument_agent_instance_id, _, instrument_device_id = _make_instrument_agent_structure()
instrument_agent_instance_obj = self.RR2.read(instrument_agent_instance_id)
log.debug("Testing instrument config")
iconfig_builder.set_agent_instance_object(instrument_agent_instance_obj)
instrument_config = iconfig_builder.prepare(will_launch=False)
verify_instrument_config(instrument_config, instrument_device_id)
log.debug("assigning instrument to platform")
self.RR2.assign_instrument_device_to_platform_device(instrument_device_id, platform_device_child_id)
child_device_ids = self.RR2.find_instrument_device_ids_of_device(platform_device_child_id)
self.assertNotEqual(0, len(child_device_ids))
log.debug("Testing entire config")
pconfig_builder.set_agent_instance_object(platform_agent_instance_parent_obj)
full_config = pconfig_builder.prepare(will_launch=False)
verify_parent_config(full_config, platform_device_parent_id, platform_device_child_id, instrument_device_id)
class TestDMEnd2End(IonIntegrationTestCase):
def setUp(self): # Love the non pep-8 convention
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.process_dispatcher = ProcessDispatcherServiceClient()
self.pubsub_management = PubsubManagementServiceClient()
self.resource_registry = ResourceRegistryServiceClient()
self.dataset_management = DatasetManagementServiceClient()
self.ingestion_management = IngestionManagementServiceClient()
self.data_retriever = DataRetrieverServiceClient()
self.pids = []
self.event = Event()
self.exchange_space_name = 'test_granules'
self.exchange_point_name = 'science_data'
self.i = 0
self.purge_queues()
self.queue_buffer = []
self.streams = []
self.addCleanup(self.stop_all_ingestion)
def purge_queues(self):
xn = self.container.ex_manager.create_xn_queue(
'science_granule_ingestion')
xn.purge()
def tearDown(self):
self.purge_queues()
for pid in self.pids:
self.container.proc_manager.terminate_process(pid)
IngestionManagementIntTest.clean_subscriptions()
for queue in self.queue_buffer:
if isinstance(queue, ExchangeNameQueue):
queue.delete()
elif isinstance(queue, str):
xn = self.container.ex_manager.create_xn_queue(queue)
xn.delete()
#--------------------------------------------------------------------------------
# Helper/Utility methods
#--------------------------------------------------------------------------------
def create_dataset(self, parameter_dict_id=''):
'''
Creates a time-series dataset
'''
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
if not parameter_dict_id:
parameter_dict_id = self.dataset_management.read_parameter_dictionary_by_name(
'ctd_parsed_param_dict', id_only=True)
dataset_id = self.dataset_management.create_dataset(
'test_dataset_%i' % self.i,
parameter_dictionary_id=parameter_dict_id,
spatial_domain=sdom,
temporal_domain=tdom)
return dataset_id
def get_datastore(self, dataset_id):
'''
Gets an instance of the datastore
This method is primarily used to defeat a bug where integration tests in multiple containers may sometimes
delete a CouchDB datastore and the other containers are unaware of the new state of the datastore.
'''
dataset = self.dataset_management.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(
datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def get_ingestion_config(self):
'''
Grab the ingestion configuration from the resource registry
'''
# The ingestion configuration should have been created by the bootstrap service
# which is configured through r2deploy.yml
ingest_configs, _ = self.resource_registry.find_resources(
restype=RT.IngestionConfiguration, id_only=True)
return ingest_configs[0]
def launch_producer(self, stream_id=''):
'''
Launch the producer
'''
pid = self.container.spawn_process(
'better_data_producer', 'ion.processes.data.example_data_producer',
'BetterDataProducer', {'process': {
'stream_id': stream_id
}})
self.pids.append(pid)
def make_simple_dataset(self):
'''
Makes a stream, a stream definition and a dataset, the essentials for most of these tests
'''
pdict_id = self.dataset_management.read_parameter_dictionary_by_name(
'ctd_parsed_param_dict', id_only=True)
stream_def_id = self.pubsub_management.create_stream_definition(
'ctd data', parameter_dictionary_id=pdict_id)
stream_id, route = self.pubsub_management.create_stream(
'ctd stream %i' % self.i,
'xp1',
stream_definition_id=stream_def_id)
dataset_id = self.create_dataset(pdict_id)
self.get_datastore(dataset_id)
self.i += 1
return stream_id, route, stream_def_id, dataset_id
def publish_hifi(self, stream_id, stream_route, offset=0):
'''
Publish deterministic data
'''
pub = StandaloneStreamPublisher(stream_id, stream_route)
stream_def = self.pubsub_management.read_stream_definition(
stream_id=stream_id)
stream_def_id = stream_def._id
rdt = RecordDictionaryTool(stream_definition_id=stream_def_id)
rdt['time'] = np.arange(10) + (offset * 10)
rdt['temp'] = np.arange(10) + (offset * 10)
pub.publish(rdt.to_granule())
def publish_fake_data(self, stream_id, route):
'''
Make four granules
'''
for i in xrange(4):
self.publish_hifi(stream_id, route, i)
def start_ingestion(self, stream_id, dataset_id):
'''
Starts ingestion/persistence for a given dataset
'''
ingest_config_id = self.get_ingestion_config()
self.ingestion_management.persist_data_stream(
stream_id=stream_id,
ingestion_configuration_id=ingest_config_id,
dataset_id=dataset_id)
def stop_ingestion(self, stream_id):
ingest_config_id = self.get_ingestion_config()
self.ingestion_management.unpersist_data_stream(
stream_id=stream_id, ingestion_configuration_id=ingest_config_id)
def stop_all_ingestion(self):
try:
[self.stop_ingestion(sid) for sid in self.streams]
except:
pass
def validate_granule_subscription(self, msg, route, stream_id):
'''
Validation for granule format
'''
if msg == {}:
return
rdt = RecordDictionaryTool.load_from_granule(msg)
log.info('%s', rdt.pretty_print())
self.assertIsInstance(
msg, Granule, 'Message is improperly formatted. (%s)' % type(msg))
self.event.set()
def wait_until_we_have_enough_granules(self, dataset_id='', data_size=40):
'''
Loops until there is a sufficient amount of data in the dataset
'''
done = False
with gevent.Timeout(40):
while not done:
extents = self.dataset_management.dataset_extents(
dataset_id, 'time')[0]
granule = self.data_retriever.retrieve_last_data_points(
dataset_id, 1)
rdt = RecordDictionaryTool.load_from_granule(granule)
if rdt['time'] and rdt['time'][0] != rdt._pdict.get_context(
'time').fill_value and extents >= data_size:
done = True
else:
gevent.sleep(0.2)
#--------------------------------------------------------------------------------
# Test Methods
#--------------------------------------------------------------------------------
@attr('SMOKE')
def test_dm_end_2_end(self):
#--------------------------------------------------------------------------------
# Set up a stream and have a mock instrument (producer) send data
#--------------------------------------------------------------------------------
self.event.clear()
# Get a precompiled parameter dictionary with basic ctd fields
pdict_id = self.dataset_management.read_parameter_dictionary_by_name(
'ctd_parsed_param_dict', id_only=True)
context_ids = self.dataset_management.read_parameter_contexts(
pdict_id, id_only=True)
# Add a field that supports binary data input.
bin_context = ParameterContext('binary', param_type=ArrayType())
context_ids.append(
self.dataset_management.create_parameter_context(
'binary', bin_context.dump()))
# Add another field that supports dictionary elements.
rec_context = ParameterContext('records', param_type=RecordType())
context_ids.append(
self.dataset_management.create_parameter_context(
'records', rec_context.dump()))
pdict_id = self.dataset_management.create_parameter_dictionary(
'replay_pdict',
parameter_context_ids=context_ids,
temporal_context='time')
stream_definition = self.pubsub_management.create_stream_definition(
'ctd data', parameter_dictionary_id=pdict_id)
stream_id, route = self.pubsub_management.create_stream(
'producer',
exchange_point=self.exchange_point_name,
stream_definition_id=stream_definition)
#--------------------------------------------------------------------------------
# Start persisting the data on the stream
# - Get the ingestion configuration from the resource registry
# - Create the dataset
# - call persist_data_stream to setup the subscription for the ingestion workers
# on the stream that you specify which causes the data to be persisted
#--------------------------------------------------------------------------------
ingest_config_id = self.get_ingestion_config()
dataset_id = self.create_dataset(pdict_id)
self.ingestion_management.persist_data_stream(
stream_id=stream_id,
ingestion_configuration_id=ingest_config_id,
dataset_id=dataset_id)
#--------------------------------------------------------------------------------
# Now the granules are ingesting and persisted
#--------------------------------------------------------------------------------
self.launch_producer(stream_id)
self.wait_until_we_have_enough_granules(dataset_id, 40)
#--------------------------------------------------------------------------------
# Now get the data in one chunk using an RPC Call to start_retreive
#--------------------------------------------------------------------------------
replay_data = self.data_retriever.retrieve(dataset_id)
self.assertIsInstance(replay_data, Granule)
rdt = RecordDictionaryTool.load_from_granule(replay_data)
self.assertTrue((rdt['time'][:10] == np.arange(10)).all(),
'%s' % rdt['time'][:])
self.assertTrue((rdt['binary'][:10] == np.array(['hi'] * 10,
dtype='object')).all())
#--------------------------------------------------------------------------------
# Now to try the streamed approach
#--------------------------------------------------------------------------------
replay_stream_id, replay_route = self.pubsub_management.create_stream(
'replay_out',
exchange_point=self.exchange_point_name,
stream_definition_id=stream_definition)
self.replay_id, process_id = self.data_retriever.define_replay(
dataset_id=dataset_id, stream_id=replay_stream_id)
log.info('Process ID: %s', process_id)
replay_client = ReplayClient(process_id)
#--------------------------------------------------------------------------------
# Create the listening endpoint for the the retriever to talk to
#--------------------------------------------------------------------------------
xp = self.container.ex_manager.create_xp(self.exchange_point_name)
subscriber = StandaloneStreamSubscriber(
self.exchange_space_name, self.validate_granule_subscription)
self.queue_buffer.append(self.exchange_space_name)
subscriber.start()
subscriber.xn.bind(replay_route.routing_key, xp)
self.data_retriever.start_replay_agent(self.replay_id)
self.assertTrue(replay_client.await_agent_ready(5),
'The process never launched')
replay_client.start_replay()
self.assertTrue(self.event.wait(10))
subscriber.stop()
self.data_retriever.cancel_replay_agent(self.replay_id)
#--------------------------------------------------------------------------------
# Test the slicing capabilities
#--------------------------------------------------------------------------------
granule = self.data_retriever.retrieve(dataset_id=dataset_id,
query={'tdoa': slice(0, 5)})
rdt = RecordDictionaryTool.load_from_granule(granule)
b = rdt['time'] == np.arange(5)
self.assertTrue(b.all() if not isinstance(b, bool) else b)
self.streams.append(stream_id)
self.stop_ingestion(stream_id)
@unittest.skip('Doesnt work')
@attr('LOCOINT')
@unittest.skipIf(os.getenv('CEI_LAUNCH_TEST', False),
'Skip test while in CEI LAUNCH mode')
def test_replay_pause(self):
# Get a precompiled parameter dictionary with basic ctd fields
pdict_id = self.dataset_management.read_parameter_dictionary_by_name(
'ctd_parsed_param_dict', id_only=True)
context_ids = self.dataset_management.read_parameter_contexts(
pdict_id, id_only=True)
# Add a field that supports binary data input.
bin_context = ParameterContext('binary', param_type=ArrayType())
context_ids.append(
self.dataset_management.create_parameter_context(
'binary', bin_context.dump()))
# Add another field that supports dictionary elements.
rec_context = ParameterContext('records', param_type=RecordType())
context_ids.append(
self.dataset_management.create_parameter_context(
'records', rec_context.dump()))
pdict_id = self.dataset_management.create_parameter_dictionary(
'replay_pdict',
parameter_context_ids=context_ids,
temporal_context='time')
stream_def_id = self.pubsub_management.create_stream_definition(
'replay_stream', parameter_dictionary_id=pdict_id)
replay_stream, replay_route = self.pubsub_management.create_stream(
'replay', 'xp1', stream_definition_id=stream_def_id)
dataset_id = self.create_dataset(pdict_id)
scov = DatasetManagementService._get_coverage(dataset_id)
bb = CoverageCraft(scov)
bb.rdt['time'] = np.arange(100)
bb.rdt['temp'] = np.random.random(100) + 30
bb.sync_with_granule()
DatasetManagementService._persist_coverage(
dataset_id,
bb.coverage) # This invalidates it for multi-host configurations
# Set up the subscriber to verify the data
subscriber = StandaloneStreamSubscriber(
self.exchange_space_name, self.validate_granule_subscription)
xp = self.container.ex_manager.create_xp('xp1')
self.queue_buffer.append(self.exchange_space_name)
subscriber.start()
subscriber.xn.bind(replay_route.routing_key, xp)
# Set up the replay agent and the client wrapper
# 1) Define the Replay (dataset and stream to publish on)
self.replay_id, process_id = self.data_retriever.define_replay(
dataset_id=dataset_id, stream_id=replay_stream)
# 2) Make a client to the interact with the process (optionall provide it a process to bind with)
replay_client = ReplayClient(process_id)
# 3) Start the agent (launch the process)
self.data_retriever.start_replay_agent(self.replay_id)
# 4) Start replaying...
replay_client.start_replay()
# Wait till we get some granules
self.assertTrue(self.event.wait(5))
# We got granules, pause the replay, clear the queue and allow the process to finish consuming
replay_client.pause_replay()
gevent.sleep(1)
subscriber.xn.purge()
self.event.clear()
# Make sure there's no remaining messages being consumed
self.assertFalse(self.event.wait(1))
# Resume the replay and wait until we start getting granules again
replay_client.resume_replay()
self.assertTrue(self.event.wait(5))
# Stop the replay, clear the queues
replay_client.stop_replay()
gevent.sleep(1)
subscriber.xn.purge()
self.event.clear()
# Make sure that it did indeed stop
self.assertFalse(self.event.wait(1))
subscriber.stop()
def test_retrieve_and_transform(self):
# Make a simple dataset and start ingestion, pretty standard stuff.
ctd_stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset(
)
self.start_ingestion(ctd_stream_id, dataset_id)
# Stream definition for the salinity data
salinity_pdict_id = self.dataset_management.read_parameter_dictionary_by_name(
'ctd_parsed_param_dict', id_only=True)
sal_stream_def_id = self.pubsub_management.create_stream_definition(
'sal data', parameter_dictionary_id=salinity_pdict_id)
rdt = RecordDictionaryTool(stream_definition_id=stream_def_id)
rdt['time'] = np.arange(10)
rdt['temp'] = np.random.randn(10) * 10 + 30
rdt['conductivity'] = np.random.randn(10) * 2 + 10
rdt['pressure'] = np.random.randn(10) * 1 + 12
publisher = StandaloneStreamPublisher(ctd_stream_id, route)
publisher.publish(rdt.to_granule())
rdt['time'] = np.arange(10, 20)
publisher.publish(rdt.to_granule())
self.wait_until_we_have_enough_granules(dataset_id, 20)
granule = self.data_retriever.retrieve(
dataset_id,
None,
None,
'ion.processes.data.transforms.ctd.ctd_L2_salinity',
'CTDL2SalinityTransformAlgorithm',
kwargs=dict(params=sal_stream_def_id))
rdt = RecordDictionaryTool.load_from_granule(granule)
for i in rdt['salinity']:
self.assertNotEquals(i, 0)
self.streams.append(ctd_stream_id)
self.stop_ingestion(ctd_stream_id)
def test_last_granule(self):
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset(
)
self.start_ingestion(stream_id, dataset_id)
self.publish_hifi(stream_id, route, 0)
self.publish_hifi(stream_id, route, 1)
self.wait_until_we_have_enough_granules(dataset_id,
20) # I just need two
success = False
def verifier():
replay_granule = self.data_retriever.retrieve_last_data_points(
dataset_id, 10)
rdt = RecordDictionaryTool.load_from_granule(replay_granule)
comp = rdt['time'] == np.arange(10) + 10
if not isinstance(comp, bool):
return comp.all()
return False
success = poll(verifier)
self.assertTrue(success)
success = False
def verify_points():
replay_granule = self.data_retriever.retrieve_last_data_points(
dataset_id, 5)
rdt = RecordDictionaryTool.load_from_granule(replay_granule)
comp = rdt['time'] == np.arange(15, 20)
if not isinstance(comp, bool):
return comp.all()
return False
success = poll(verify_points)
self.assertTrue(success)
self.streams.append(stream_id)
self.stop_ingestion(stream_id)
def test_replay_with_parameters(self):
#--------------------------------------------------------------------------------
# Create the configurations and the dataset
#--------------------------------------------------------------------------------
# Get a precompiled parameter dictionary with basic ctd fields
pdict_id = self.dataset_management.read_parameter_dictionary_by_name(
'ctd_parsed_param_dict', id_only=True)
context_ids = self.dataset_management.read_parameter_contexts(
pdict_id, id_only=True)
# Add a field that supports binary data input.
bin_context = ParameterContext('binary', param_type=ArrayType())
context_ids.append(
self.dataset_management.create_parameter_context(
'binary', bin_context.dump()))
# Add another field that supports dictionary elements.
rec_context = ParameterContext('records', param_type=RecordType())
context_ids.append(
self.dataset_management.create_parameter_context(
'records', rec_context.dump()))
pdict_id = self.dataset_management.create_parameter_dictionary(
'replay_pdict',
parameter_context_ids=context_ids,
temporal_context='time')
stream_def_id = self.pubsub_management.create_stream_definition(
'replay_stream', parameter_dictionary_id=pdict_id)
stream_id, route = self.pubsub_management.create_stream(
'replay_with_params',
exchange_point=self.exchange_point_name,
stream_definition_id=stream_def_id)
config_id = self.get_ingestion_config()
dataset_id = self.create_dataset(pdict_id)
self.ingestion_management.persist_data_stream(
stream_id=stream_id,
ingestion_configuration_id=config_id,
dataset_id=dataset_id)
dataset_modified = Event()
def cb(*args, **kwargs):
dataset_modified.set()
es = EventSubscriber(event_type=OT.DatasetModified,
callback=cb,
origin=dataset_id)
es.start()
self.addCleanup(es.stop)
self.publish_fake_data(stream_id, route)
self.assertTrue(dataset_modified.wait(30))
query = {
'start_time': 0 - 2208988800,
'end_time': 20 - 2208988800,
'stride_time': 2,
'parameters': ['time', 'temp']
}
retrieved_data = self.data_retriever.retrieve(dataset_id=dataset_id,
query=query)
rdt = RecordDictionaryTool.load_from_granule(retrieved_data)
comp = np.arange(0, 20, 2) == rdt['time']
self.assertTrue(comp.all(), '%s' % rdt.pretty_print())
self.assertEquals(set(rdt.iterkeys()), set(['time', 'temp']))
extents = self.dataset_management.dataset_extents(
dataset_id=dataset_id, parameters=['time', 'temp'])
self.assertTrue(extents['time'] >= 20)
self.assertTrue(extents['temp'] >= 20)
self.streams.append(stream_id)
self.stop_ingestion(stream_id)
def test_repersist_data(self):
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset(
)
self.start_ingestion(stream_id, dataset_id)
self.publish_hifi(stream_id, route, 0)
self.publish_hifi(stream_id, route, 1)
self.wait_until_we_have_enough_granules(dataset_id, 20)
config_id = self.get_ingestion_config()
self.ingestion_management.unpersist_data_stream(
stream_id=stream_id, ingestion_configuration_id=config_id)
self.ingestion_management.persist_data_stream(
stream_id=stream_id,
ingestion_configuration_id=config_id,
dataset_id=dataset_id)
self.publish_hifi(stream_id, route, 2)
self.publish_hifi(stream_id, route, 3)
self.wait_until_we_have_enough_granules(dataset_id, 40)
success = False
with gevent.timeout.Timeout(5):
while not success:
replay_granule = self.data_retriever.retrieve(dataset_id)
rdt = RecordDictionaryTool.load_from_granule(replay_granule)
comp = rdt['time'] == np.arange(0, 40)
if not isinstance(comp, bool):
success = comp.all()
gevent.sleep(1)
self.assertTrue(success)
self.streams.append(stream_id)
self.stop_ingestion(stream_id)
@attr('LOCOINT')
@unittest.skipIf(os.getenv(
'CEI_LAUNCH_TEST', False
), 'Host requires file-system access to coverage files, CEI mode does not support.'
)
def test_correct_time(self):
# There are 2208988800 seconds between Jan 1 1900 and Jan 1 1970, i.e.
# the conversion factor between unix and NTP time
unix_now = np.floor(time.time())
ntp_now = unix_now + 2208988800
unix_ago = unix_now - 20
ntp_ago = unix_ago + 2208988800
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset(
)
coverage = DatasetManagementService._get_coverage(dataset_id)
coverage.insert_timesteps(20)
coverage.set_parameter_values('time', np.arange(ntp_ago, ntp_now))
temporal_bounds = self.dataset_management.dataset_temporal_bounds(
dataset_id)
self.assertTrue(np.abs(temporal_bounds[0] - unix_ago) < 2)
self.assertTrue(np.abs(temporal_bounds[1] - unix_now) < 2)
@attr('LOCOINT')
@unittest.skipIf(os.getenv(
'CEI_LAUNCH_TEST', False
), 'Host requires file-system access to coverage files, CEI mode does not support.'
)
def test_empty_coverage_time(self):
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset(
)
coverage = DatasetManagementService._get_coverage(dataset_id)
temporal_bounds = self.dataset_management.dataset_temporal_bounds(
dataset_id)
self.assertEquals([coverage.get_parameter_context('time').fill_value] *
2, temporal_bounds)
@attr('LOCOINT')
@unittest.skipIf(os.getenv(
'CEI_LAUNCH_TEST', False
), 'Host requires file-system access to coverage files, CEI mode does not support.'
)
def test_out_of_band_retrieve(self):
# Setup the environemnt
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset(
)
self.start_ingestion(stream_id, dataset_id)
# Fill the dataset
self.publish_fake_data(stream_id, route)
self.wait_until_we_have_enough_granules(dataset_id, 40)
# Retrieve the data
granule = DataRetrieverService.retrieve_oob(dataset_id)
rdt = RecordDictionaryTool.load_from_granule(granule)
self.assertTrue((rdt['time'] == np.arange(40)).all())
@attr('LOCOINT')
@unittest.skipIf(os.getenv(
'CEI_LAUNCH_TEST', False
), 'Host requires file-system access to coverage files, CEI mode does not support.'
)
def test_retrieve_cache(self):
DataRetrieverService._refresh_interval = 1
datasets = [self.make_simple_dataset() for i in xrange(10)]
for stream_id, route, stream_def_id, dataset_id in datasets:
coverage = DatasetManagementService._get_coverage(dataset_id)
coverage.insert_timesteps(10)
coverage.set_parameter_values('time', np.arange(10))
coverage.set_parameter_values('temp', np.arange(10))
# Verify cache hit and refresh
dataset_ids = [i[3] for i in datasets]
self.assertTrue(
dataset_ids[0] not in DataRetrieverService._retrieve_cache)
DataRetrieverService._get_coverage(dataset_ids[0]) # Hit the chache
cov, age = DataRetrieverService._retrieve_cache[dataset_ids[0]]
# Verify that it was hit and it's now in there
self.assertTrue(dataset_ids[0] in DataRetrieverService._retrieve_cache)
gevent.sleep(DataRetrieverService._refresh_interval + 0.2)
DataRetrieverService._get_coverage(dataset_ids[0]) # Hit the chache
cov, age2 = DataRetrieverService._retrieve_cache[dataset_ids[0]]
self.assertTrue(age2 != age)
for dataset_id in dataset_ids:
DataRetrieverService._get_coverage(dataset_id)
self.assertTrue(
dataset_ids[0] not in DataRetrieverService._retrieve_cache)
stream_id, route, stream_def, dataset_id = datasets[0]
self.start_ingestion(stream_id, dataset_id)
DataRetrieverService._get_coverage(dataset_id)
self.assertTrue(dataset_id in DataRetrieverService._retrieve_cache)
DataRetrieverService._refresh_interval = 100
self.publish_hifi(stream_id, route, 1)
self.wait_until_we_have_enough_granules(dataset_id, data_size=20)
event = gevent.event.Event()
with gevent.Timeout(20):
while not event.wait(0.1):
if dataset_id not in DataRetrieverService._retrieve_cache:
event.set()
self.assertTrue(event.is_set())
@unittest.skip('Outdated due to ingestion retry')
@attr('LOCOINT')
@unittest.skipIf(os.getenv(
'CEI_LAUNCH_TEST', False
), 'Host requires file-system access to coverage files, CEI mode does not support.'
)
def test_ingestion_failover(self):
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset(
)
self.start_ingestion(stream_id, dataset_id)
event = Event()
def cb(*args, **kwargs):
event.set()
sub = EventSubscriber(event_type="ExceptionEvent",
callback=cb,
origin="stream_exception")
sub.start()
self.publish_fake_data(stream_id, route)
self.wait_until_we_have_enough_granules(dataset_id, 40)
file_path = DatasetManagementService._get_coverage_path(dataset_id)
master_file = os.path.join(file_path, '%s_master.hdf5' % dataset_id)
with open(master_file, 'w') as f:
f.write('this will crash HDF')
self.publish_hifi(stream_id, route, 5)
self.assertTrue(event.wait(10))
sub.stop()
class TestCoverageModelRecoveryInt(IonIntegrationTestCase):
def setUp(self):
# Start container
#print 'instantiating container'
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.dpsc_cli = DataProductManagementServiceClient()
self.rrclient = ResourceRegistryServiceClient()
self.damsclient = DataAcquisitionManagementServiceClient()
self.pubsubcli = PubsubManagementServiceClient()
self.ingestclient = IngestionManagementServiceClient()
self.process_dispatcher = ProcessDispatcherServiceClient()
self.dataset_management = DatasetManagementServiceClient()
self.unsc = UserNotificationServiceClient()
self.data_retriever = DataRetrieverServiceClient()
#------------------------------------------
# Create the environment
#------------------------------------------
datastore_name = CACHE_DATASTORE_NAME
self.db = self.container.datastore_manager.get_datastore(
datastore_name)
self.stream_def_id = self.pubsubcli.create_stream_definition(
name='SBE37_CDM')
self.process_definitions = {}
ingestion_worker_definition = ProcessDefinition(
name='ingestion worker')
ingestion_worker_definition.executable = {
'module':
'ion.processes.data.ingestion.science_granule_ingestion_worker',
'class': 'ScienceGranuleIngestionWorker'
}
process_definition_id = self.process_dispatcher.create_process_definition(
process_definition=ingestion_worker_definition)
self.process_definitions['ingestion_worker'] = process_definition_id
self.pids = []
self.exchange_points = []
self.exchange_names = []
#------------------------------------------------------------------------------------------------
# First launch the ingestors
#------------------------------------------------------------------------------------------------
self.exchange_space = 'science_granule_ingestion'
self.exchange_point = 'science_data'
config = DotDict()
config.process.datastore_name = 'datasets'
config.process.queue_name = self.exchange_space
self.exchange_names.append(self.exchange_space)
self.exchange_points.append(self.exchange_point)
pid = self.process_dispatcher.schedule_process(
self.process_definitions['ingestion_worker'], configuration=config)
log.debug("the ingestion worker process id: %s", pid)
self.pids.append(pid)
def get_datastore(self, dataset_id):
dataset = self.dataset_management.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(
datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def load_data_product(self):
dset_i = 0
dataset_management = DatasetManagementServiceClient()
pubsub_management = PubsubManagementServiceClient()
data_product_management = DataProductManagementServiceClient()
resource_registry = self.container.instance.resource_registry
tdom, sdom = time_series_domain()
tdom = tdom.dump()
sdom = sdom.dump()
dp_obj = DataProduct(name='instrument_data_product_%i' % dset_i,
description='ctd stream test',
processing_level_code='Parsed_Canonical',
temporal_domain=tdom,
spatial_domain=sdom)
pdict_id = dataset_management.read_parameter_dictionary_by_name(
'ctd_parsed_param_dict', id_only=True)
stream_def_id = pubsub_management.create_stream_definition(
name='parsed', parameter_dictionary_id=pdict_id)
self.addCleanup(pubsub_management.delete_stream_definition,
stream_def_id)
data_product_id = data_product_management.create_data_product(
data_product=dp_obj, stream_definition_id=stream_def_id)
self.addCleanup(data_product_management.delete_data_product,
data_product_id)
data_product_management.activate_data_product_persistence(
data_product_id)
self.addCleanup(
data_product_management.suspend_data_product_persistence,
data_product_id)
stream_ids, assocs = resource_registry.find_objects(
subject=data_product_id, predicate='hasStream', id_only=True)
stream_id = stream_ids[0]
route = pubsub_management.read_stream_route(stream_id)
dataset_ids, assocs = resource_registry.find_objects(
subject=data_product_id, predicate='hasDataset', id_only=True)
dataset_id = dataset_ids[0]
return data_product_id, stream_id, route, stream_def_id, dataset_id
def populate_dataset(self, dataset_id, hours):
import time
cov = DatasetManagementService._get_simplex_coverage(
dataset_id=dataset_id, mode='w')
# rcov = vcov.reference_coverage
# cov = AbstractCoverage.load(rcov.persistence_dir, mode='a')
dt = hours * 3600
cov.insert_timesteps(dt)
now = time.time()
cov.set_parameter_values('time', np.arange(now - dt, now) + 2208988800)
cov.set_parameter_values('temp',
np.sin(np.arange(dt) * 2 * np.pi / 60))
cov.set_parameter_values('lat', np.zeros(dt))
cov.set_parameter_values('lon', np.zeros(dt))
cov.close()
gevent.sleep(1)
@attr('LOCOINT')
@unittest.skipIf(os.getenv(
'CEI_LAUNCH_TEST', False
), 'Host requires file-system access to coverage files, CEI mode does not support.'
)
@unittest.skipIf(not_have_h5stat,
'h5stat is not accessible in current PATH')
@unittest.skipIf(not not_have_h5stat and not h5stat_correct_version,
'HDF is the incorrect version: %s' % version_str)
def test_coverage_recovery(self):
# Create the coverage
dp_id, stream_id, route, stream_def_id, dataset_id = self.load_data_product(
)
self.populate_dataset(dataset_id, 36)
dset = self.dataset_management.read_dataset(dataset_id)
dprod = self.dpsc_cli.read_data_product(dp_id)
cov = DatasetManagementService._get_simplex_coverage(dataset_id)
cov_pth = cov.persistence_dir
cov.close()
num_params = len(cov.list_parameters())
num_bricks = 8
total = num_params + num_bricks + 1
# Analyze the valid coverage
dr = CoverageDoctor(cov_pth, dprod, dset)
dr_result = dr.analyze()
# TODO: Turn these into meaningful Asserts
self.assertEqual(len(dr_result.get_brick_corruptions()), 0)
self.assertEqual(len(dr_result.get_brick_size_ratios()), num_bricks)
self.assertEqual(len(dr_result.get_corruptions()), 0)
self.assertEqual(len(dr_result.get_master_corruption()), 0)
self.assertEqual(len(dr_result.get_param_corruptions()), 0)
self.assertEqual(len(dr_result.get_param_size_ratios()), num_params)
self.assertEqual(len(dr_result.get_master_size_ratio()), 1)
self.assertEqual(len(dr_result.get_size_ratios()), total)
self.assertEqual(dr_result.master_status[1], 'NORMAL')
self.assertFalse(dr_result.is_corrupt)
self.assertEqual(dr_result.param_file_count, num_params)
self.assertEqual(dr_result.brick_file_count, num_bricks)
self.assertEqual(dr_result.total_file_count, total)
# Get original values (mock)
orig_cov = AbstractCoverage.load(cov_pth)
time_vals_orig = orig_cov.get_time_values()
orig_cov.close()
# Corrupt the Master File
fo = open(cov._persistence_layer.master_manager.file_path, "wb")
fo.write('Junk')
fo.close()
# Corrupt the lon Parameter file
fo = open(cov._persistence_layer.parameter_metadata['lon'].file_path,
"wb")
fo.write('Junk')
fo.close()
corrupt_res = dr.analyze(reanalyze=True)
self.assertTrue(corrupt_res.is_corrupt)
# Repair the metadata files
dr.repair(reanalyze=True)
fixed_res = dr.analyze(reanalyze=True)
self.assertFalse(fixed_res.is_corrupt)
fixed_cov = AbstractCoverage.load(cov_pth)
self.assertIsInstance(fixed_cov, AbstractCoverage)
time_vals_fixed = fixed_cov.get_time_values()
fixed_cov.close()
self.assertTrue(np.array_equiv(time_vals_orig, time_vals_fixed))
class TestDMEnd2End(IonIntegrationTestCase):
def setUp(self): # Love the non pep-8 convention
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.process_dispatcher = ProcessDispatcherServiceClient()
self.pubsub_management = PubsubManagementServiceClient()
self.resource_registry = ResourceRegistryServiceClient()
self.dataset_management = DatasetManagementServiceClient()
self.ingestion_management = IngestionManagementServiceClient()
self.data_retriever = DataRetrieverServiceClient()
self.pids = []
self.event = Event()
self.exchange_space_name = 'test_granules'
self.exchange_point_name = 'science_data'
self.purge_queues()
self.queue_buffer = []
def purge_queues(self):
xn = self.container.ex_manager.create_xn_queue('science_granule_ingestion')
xn.purge()
def tearDown(self):
self.purge_queues()
for pid in self.pids:
self.container.proc_manager.terminate_process(pid)
IngestionManagementIntTest.clean_subscriptions()
for queue in self.queue_buffer:
if isinstance(queue, ExchangeNameQueue):
queue.delete()
elif isinstance(queue, str):
xn = self.container.ex_manager.create_xn_queue(queue)
xn.delete()
def launch_producer(self, stream_id=''):
#--------------------------------------------------------------------------------
# Launch the producer
#--------------------------------------------------------------------------------
pid = self.container.spawn_process('better_data_producer', 'ion.processes.data.example_data_producer', 'BetterDataProducer', {'process':{'stream_id':stream_id}})
self.pids.append(pid)
def get_ingestion_config(self):
#--------------------------------------------------------------------------------
# Grab the ingestion configuration from the resource registry
#--------------------------------------------------------------------------------
# The ingestion configuration should have been created by the bootstrap service
# which is configured through r2deploy.yml
ingest_configs, _ = self.resource_registry.find_resources(restype=RT.IngestionConfiguration,id_only=True)
return ingest_configs[0]
def publish_hifi(self,stream_id,stream_route,offset=0):
pub = StandaloneStreamPublisher(stream_id, stream_route)
stream_def = self.pubsub_management.read_stream_definition(stream_id=stream_id)
stream_def_id = stream_def._id
rdt = RecordDictionaryTool(stream_definition_id=stream_def_id)
rdt['time'] = np.arange(10) + (offset * 10)
rdt['temp'] = np.arange(10) + (offset * 10)
pub.publish(rdt.to_granule())
def publish_fake_data(self,stream_id, route):
for i in xrange(4):
self.publish_hifi(stream_id,route,i)
def get_datastore(self, dataset_id):
dataset = self.dataset_management.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def validate_granule_subscription(self, msg, route, stream_id):
if msg == {}:
return
rdt = RecordDictionaryTool.load_from_granule(msg)
log.info('%s', rdt.pretty_print())
self.assertIsInstance(msg,Granule,'Message is improperly formatted. (%s)' % type(msg))
self.event.set()
def make_file_data(self):
from interface.objects import File
import uuid
data = 'hello world\n'
rand = str(uuid.uuid4())[:8]
meta = File(name='/examples/' + rand + '.txt', group_id='example1')
return {'body': data, 'meta':meta}
def publish_file(self, stream_id, stream_route):
publisher = StandaloneStreamPublisher(stream_id,stream_route)
publisher.publish(self.make_file_data())
def wait_until_we_have_enough_granules(self, dataset_id='',granules=4):
datastore = self.get_datastore(dataset_id)
dataset = self.dataset_management.read_dataset(dataset_id)
with gevent.timeout.Timeout(40):
success = False
while not success:
success = len(datastore.query_view(dataset.view_name)) >= granules
gevent.sleep(0.1)
log.info(datastore.query_view(dataset.view_name))
def wait_until_we_have_enough_files(self):
datastore = self.container.datastore_manager.get_datastore('filesystem', DataStore.DS_PROFILE.FILESYSTEM)
now = time.time()
timeout = now + 10
done = False
while not done:
if now >= timeout:
raise Timeout('Files are not populating in time.')
if len(datastore.query_view('catalog/file_by_owner')) >= 1:
done = True
now = time.time()
def create_dataset(self, parameter_dict_id=''):
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
if not parameter_dict_id:
parameter_dict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
dataset_id = self.dataset_management.create_dataset('test_dataset', parameter_dictionary_id=parameter_dict_id, spatial_domain=sdom, temporal_domain=tdom)
return dataset_id
@unittest.skip('Doesnt work')
@attr('LOCOINT')
@unittest.skipIf(os.getenv('CEI_LAUNCH_TEST', False), 'Skip test while in CEI LAUNCH mode')
def test_replay_pause(self):
# Get a precompiled parameter dictionary with basic ctd fields
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict',id_only=True)
context_ids = self.dataset_management.read_parameter_contexts(pdict_id, id_only=True)
# Add a field that supports binary data input.
bin_context = ParameterContext('binary', param_type=ArrayType())
context_ids.append(self.dataset_management.create_parameter_context('binary', bin_context.dump()))
# Add another field that supports dictionary elements.
rec_context = ParameterContext('records', param_type=RecordType())
context_ids.append(self.dataset_management.create_parameter_context('records', rec_context.dump()))
pdict_id = self.dataset_management.create_parameter_dictionary('replay_pdict', parameter_context_ids=context_ids, temporal_context='time')
stream_def_id = self.pubsub_management.create_stream_definition('replay_stream', parameter_dictionary_id=pdict_id)
replay_stream, replay_route = self.pubsub_management.create_stream('replay', 'xp1', stream_definition_id=stream_def_id)
dataset_id = self.create_dataset(pdict_id)
scov = DatasetManagementService._get_coverage(dataset_id)
bb = CoverageCraft(scov)
bb.rdt['time'] = np.arange(100)
bb.rdt['temp'] = np.random.random(100) + 30
bb.sync_with_granule()
DatasetManagementService._persist_coverage(dataset_id, bb.coverage) # This invalidates it for multi-host configurations
# Set up the subscriber to verify the data
subscriber = StandaloneStreamSubscriber(self.exchange_space_name, self.validate_granule_subscription)
xp = self.container.ex_manager.create_xp('xp1')
self.queue_buffer.append(self.exchange_space_name)
subscriber.start()
subscriber.xn.bind(replay_route.routing_key, xp)
# Set up the replay agent and the client wrapper
# 1) Define the Replay (dataset and stream to publish on)
self.replay_id, process_id = self.data_retriever.define_replay(dataset_id=dataset_id, stream_id=replay_stream)
# 2) Make a client to the interact with the process (optionall provide it a process to bind with)
replay_client = ReplayClient(process_id)
# 3) Start the agent (launch the process)
self.data_retriever.start_replay_agent(self.replay_id)
# 4) Start replaying...
replay_client.start_replay()
# Wait till we get some granules
self.assertTrue(self.event.wait(5))
# We got granules, pause the replay, clear the queue and allow the process to finish consuming
replay_client.pause_replay()
gevent.sleep(1)
subscriber.xn.purge()
self.event.clear()
# Make sure there's no remaining messages being consumed
self.assertFalse(self.event.wait(1))
# Resume the replay and wait until we start getting granules again
replay_client.resume_replay()
self.assertTrue(self.event.wait(5))
# Stop the replay, clear the queues
replay_client.stop_replay()
gevent.sleep(1)
subscriber.xn.purge()
self.event.clear()
# Make sure that it did indeed stop
self.assertFalse(self.event.wait(1))
subscriber.stop()
@attr('SMOKE')
def test_dm_end_2_end(self):
#--------------------------------------------------------------------------------
# Set up a stream and have a mock instrument (producer) send data
#--------------------------------------------------------------------------------
self.event.clear()
# Get a precompiled parameter dictionary with basic ctd fields
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict',id_only=True)
context_ids = self.dataset_management.read_parameter_contexts(pdict_id, id_only=True)
# Add a field that supports binary data input.
bin_context = ParameterContext('binary', param_type=ArrayType())
context_ids.append(self.dataset_management.create_parameter_context('binary', bin_context.dump()))
# Add another field that supports dictionary elements.
rec_context = ParameterContext('records', param_type=RecordType())
context_ids.append(self.dataset_management.create_parameter_context('records', rec_context.dump()))
pdict_id = self.dataset_management.create_parameter_dictionary('replay_pdict', parameter_context_ids=context_ids, temporal_context='time')
stream_definition = self.pubsub_management.create_stream_definition('ctd data', parameter_dictionary_id=pdict_id)
stream_id, route = self.pubsub_management.create_stream('producer', exchange_point=self.exchange_point_name, stream_definition_id=stream_definition)
#--------------------------------------------------------------------------------
# Start persisting the data on the stream
# - Get the ingestion configuration from the resource registry
# - Create the dataset
# - call persist_data_stream to setup the subscription for the ingestion workers
# on the stream that you specify which causes the data to be persisted
#--------------------------------------------------------------------------------
ingest_config_id = self.get_ingestion_config()
dataset_id = self.create_dataset(pdict_id)
self.ingestion_management.persist_data_stream(stream_id=stream_id, ingestion_configuration_id=ingest_config_id, dataset_id=dataset_id)
#--------------------------------------------------------------------------------
# Now the granules are ingesting and persisted
#--------------------------------------------------------------------------------
self.launch_producer(stream_id)
self.wait_until_we_have_enough_granules(dataset_id,4)
#--------------------------------------------------------------------------------
# Now get the data in one chunk using an RPC Call to start_retreive
#--------------------------------------------------------------------------------
replay_data = self.data_retriever.retrieve(dataset_id)
self.assertIsInstance(replay_data, Granule)
rdt = RecordDictionaryTool.load_from_granule(replay_data)
self.assertTrue((rdt['time'][:10] == np.arange(10)).all(),'%s' % rdt['time'][:])
self.assertTrue((rdt['binary'][:10] == np.array(['hi']*10, dtype='object')).all())
#--------------------------------------------------------------------------------
# Now to try the streamed approach
#--------------------------------------------------------------------------------
replay_stream_id, replay_route = self.pubsub_management.create_stream('replay_out', exchange_point=self.exchange_point_name, stream_definition_id=stream_definition)
self.replay_id, process_id = self.data_retriever.define_replay(dataset_id=dataset_id, stream_id=replay_stream_id)
log.info('Process ID: %s', process_id)
replay_client = ReplayClient(process_id)
#--------------------------------------------------------------------------------
# Create the listening endpoint for the the retriever to talk to
#--------------------------------------------------------------------------------
xp = self.container.ex_manager.create_xp(self.exchange_point_name)
subscriber = StandaloneStreamSubscriber(self.exchange_space_name, self.validate_granule_subscription)
self.queue_buffer.append(self.exchange_space_name)
subscriber.start()
subscriber.xn.bind(replay_route.routing_key, xp)
self.data_retriever.start_replay_agent(self.replay_id)
self.assertTrue(replay_client.await_agent_ready(5), 'The process never launched')
replay_client.start_replay()
self.assertTrue(self.event.wait(10))
subscriber.stop()
self.data_retriever.cancel_replay_agent(self.replay_id)
#--------------------------------------------------------------------------------
# Test the slicing capabilities
#--------------------------------------------------------------------------------
granule = self.data_retriever.retrieve(dataset_id=dataset_id, query={'tdoa':slice(0,5)})
rdt = RecordDictionaryTool.load_from_granule(granule)
b = rdt['time'] == np.arange(5)
self.assertTrue(b.all() if not isinstance(b,bool) else b)
def test_retrieve_and_transform(self):
# Stream definition for the CTD data
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
stream_def_id = self.pubsub_management.create_stream_definition('ctd data', parameter_dictionary_id=pdict_id)
ctd_stream_id, route = self.pubsub_management.create_stream('ctd stream', 'xp1', stream_definition_id=stream_def_id)
# Stream definition for the salinity data
salinity_pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
sal_stream_def_id = self.pubsub_management.create_stream_definition('sal data', parameter_dictionary_id=salinity_pdict_id)
ingest_config_id = self.get_ingestion_config()
dataset_id = self.create_dataset(pdict_id)
#--------------------------------------------------------------------------------
# Again with this ridiculous problem
#--------------------------------------------------------------------------------
self.get_datastore(dataset_id)
self.ingestion_management.persist_data_stream(stream_id=ctd_stream_id, ingestion_configuration_id=ingest_config_id, dataset_id=dataset_id)
rdt = RecordDictionaryTool(stream_definition_id=stream_def_id)
rdt['time'] = np.arange(10)
rdt['temp'] = np.random.randn(10) * 10 + 30
rdt['conductivity'] = np.random.randn(10) * 2 + 10
publisher = StandaloneStreamPublisher(ctd_stream_id, route)
publisher.publish(rdt.to_granule())
rdt['time'] = np.arange(10,20)
publisher.publish(rdt.to_granule())
self.wait_until_we_have_enough_granules(dataset_id, 2)
granule = self.data_retriever.retrieve(dataset_id,
None,
None,
'ion.processes.data.transforms.ctd.ctd_L2_salinity',
'CTDL2SalinityTransformAlgorithm',
kwargs=dict(params=sal_stream_def_id))
rdt = RecordDictionaryTool.load_from_granule(granule)
for i in rdt['salinity']:
self.assertNotEquals(i,0)
def test_last_granule(self):
#--------------------------------------------------------------------------------
# Create the necessary configurations for the test
#--------------------------------------------------------------------------------
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
stream_def_id = self.pubsub_management.create_stream_definition('ctd parsed', parameter_dictionary_id=pdict_id)
stream_id, route = self.pubsub_management.create_stream('last_granule', exchange_point=self.exchange_point_name, stream_definition_id=stream_def_id)
config_id = self.get_ingestion_config()
dataset_id = self.create_dataset(pdict_id)
self.ingestion_management.persist_data_stream(stream_id=stream_id, ingestion_configuration_id=config_id, dataset_id=dataset_id)
#--------------------------------------------------------------------------------
# Create the datastore first,
#--------------------------------------------------------------------------------
self.get_datastore(dataset_id)
self.publish_hifi(stream_id,route, 0)
self.publish_hifi(stream_id,route, 1)
self.wait_until_we_have_enough_granules(dataset_id,2) # I just need two
success = False
def verifier():
replay_granule = self.data_retriever.retrieve_last_granule(dataset_id)
rdt = RecordDictionaryTool.load_from_granule(replay_granule)
comp = rdt['time'] == np.arange(10) + 10
if not isinstance(comp,bool):
return comp.all()
return False
success = poll(verifier)
self.assertTrue(success)
success = False
def verify_points():
replay_granule = self.data_retriever.retrieve_last_data_points(dataset_id,5)
rdt = RecordDictionaryTool.load_from_granule(replay_granule)
comp = rdt['time'] == np.arange(15,20)
if not isinstance(comp,bool):
return comp.all()
return False
success = poll(verify_points)
self.assertTrue(success)
def test_replay_with_parameters(self):
#--------------------------------------------------------------------------------
# Create the configurations and the dataset
#--------------------------------------------------------------------------------
# Get a precompiled parameter dictionary with basic ctd fields
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict',id_only=True)
context_ids = self.dataset_management.read_parameter_contexts(pdict_id, id_only=True)
# Add a field that supports binary data input.
bin_context = ParameterContext('binary', param_type=ArrayType())
context_ids.append(self.dataset_management.create_parameter_context('binary', bin_context.dump()))
# Add another field that supports dictionary elements.
rec_context = ParameterContext('records', param_type=RecordType())
context_ids.append(self.dataset_management.create_parameter_context('records', rec_context.dump()))
pdict_id = self.dataset_management.create_parameter_dictionary('replay_pdict', parameter_context_ids=context_ids, temporal_context='time')
stream_def_id = self.pubsub_management.create_stream_definition('replay_stream', parameter_dictionary_id=pdict_id)
stream_id, route = self.pubsub_management.create_stream('replay_with_params', exchange_point=self.exchange_point_name, stream_definition_id=stream_def_id)
config_id = self.get_ingestion_config()
dataset_id = self.create_dataset(pdict_id)
self.ingestion_management.persist_data_stream(stream_id=stream_id, ingestion_configuration_id=config_id, dataset_id=dataset_id)
#--------------------------------------------------------------------------------
# Coerce the datastore into existence (beats race condition)
#--------------------------------------------------------------------------------
self.get_datastore(dataset_id)
self.launch_producer(stream_id)
self.wait_until_we_have_enough_granules(dataset_id,4)
query = {
'start_time': 0,
'end_time': 20,
'stride_time' : 2,
'parameters': ['time','temp']
}
retrieved_data = self.data_retriever.retrieve(dataset_id=dataset_id,query=query)
rdt = RecordDictionaryTool.load_from_granule(retrieved_data)
comp = np.arange(0,20,2) == rdt['time']
self.assertTrue(comp.all(),'%s' % rdt.pretty_print())
self.assertEquals(set(rdt.iterkeys()), set(['time','temp']))
extents = self.dataset_management.dataset_extents(dataset_id=dataset_id, parameters=['time','temp'])
self.assertTrue(extents['time']>=20)
self.assertTrue(extents['temp']>=20)
def test_repersist_data(self):
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict',id_only=True)
stream_def_id = self.pubsub_management.create_stream_definition(name='ctd', parameter_dictionary_id=pdict_id)
stream_id, route = self.pubsub_management.create_stream(name='repersist', exchange_point=self.exchange_point_name, stream_definition_id=stream_def_id)
config_id = self.get_ingestion_config()
dataset_id = self.create_dataset(pdict_id)
self.ingestion_management.persist_data_stream(stream_id=stream_id, ingestion_configuration_id=config_id, dataset_id=dataset_id)
self.get_datastore(dataset_id)
self.publish_hifi(stream_id,route,0)
self.publish_hifi(stream_id,route,1)
self.wait_until_we_have_enough_granules(dataset_id,2)
self.ingestion_management.unpersist_data_stream(stream_id=stream_id,ingestion_configuration_id=config_id)
self.ingestion_management.persist_data_stream(stream_id=stream_id,ingestion_configuration_id=config_id,dataset_id=dataset_id)
self.publish_hifi(stream_id,route,2)
self.publish_hifi(stream_id,route,3)
self.wait_until_we_have_enough_granules(dataset_id,4)
success = False
with gevent.timeout.Timeout(5):
while not success:
replay_granule = self.data_retriever.retrieve(dataset_id)
rdt = RecordDictionaryTool.load_from_granule(replay_granule)
comp = rdt['time'] == np.arange(0,40)
if not isinstance(comp,bool):
success = comp.all()
gevent.sleep(1)
self.assertTrue(success)
class TestActivateInstrumentIntegration(IonIntegrationTestCase):
def setUp(self):
# Start container
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
# Now create client to DataProductManagementService
self.rrclient = ResourceRegistryServiceClient(node=self.container.node)
self.damsclient = DataAcquisitionManagementServiceClient(node=self.container.node)
self.pubsubcli = PubsubManagementServiceClient(node=self.container.node)
self.imsclient = InstrumentManagementServiceClient(node=self.container.node)
self.dpclient = DataProductManagementServiceClient(node=self.container.node)
self.datasetclient = DatasetManagementServiceClient(node=self.container.node)
self.processdispatchclient = ProcessDispatcherServiceClient(node=self.container.node)
self.dataprocessclient = DataProcessManagementServiceClient(node=self.container.node)
self.dataproductclient = DataProductManagementServiceClient(node=self.container.node)
self.dataretrieverclient = DataRetrieverServiceClient(node=self.container.node)
self.dataset_management = DatasetManagementServiceClient()
#setup listerner vars
self._data_greenlets = []
self._no_samples = None
self._samples_received = []
def create_logger(self, name, stream_id=''):
# logger process
producer_definition = ProcessDefinition(name=name+'_logger')
producer_definition.executable = {
'module':'ion.processes.data.stream_granule_logger',
'class':'StreamGranuleLogger'
}
logger_procdef_id = self.processdispatchclient.create_process_definition(process_definition=producer_definition)
configuration = {
'process':{
'stream_id':stream_id,
}
}
pid = self.processdispatchclient.schedule_process(process_definition_id=logger_procdef_id,
configuration=configuration)
return pid
def get_datastore(self, dataset_id):
dataset = self.datasetclient.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
#@unittest.skip("TBD")
def test_activateInstrumentSample(self):
self.loggerpids = []
# Create InstrumentModel
instModel_obj = IonObject(RT.InstrumentModel,
name='SBE37IMModel',
description="SBE37IMModel",
stream_configuration= {'raw': 'ctd_raw_param_dict' , 'parsed': 'ctd_parsed_param_dict' })
instModel_id = self.imsclient.create_instrument_model(instModel_obj)
print 'new InstrumentModel id = %s ' % instModel_id
# Create InstrumentAgent
instAgent_obj = IonObject(RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
driver_module="mi.instrument.seabird.sbe37smb.ooicore.driver",
driver_class="SBE37Driver" )
instAgent_id = self.imsclient.create_instrument_agent(instAgent_obj)
print 'new InstrumentAgent id = %s' % instAgent_id
self.imsclient.assign_instrument_model_to_instrument_agent(instModel_id, instAgent_id)
# Create InstrumentDevice
print 'test_activateInstrumentSample: Create instrument resource to represent the SBE37 ' +\
'(SA Req: L4-CI-SA-RQ-241) '
instDevice_obj = IonObject(RT.InstrumentDevice,
name='SBE37IMDevice',
description="SBE37IMDevice",
serial_number="12345" )
instDevice_id = self.imsclient.create_instrument_device(instrument_device=instDevice_obj)
self.imsclient.assign_instrument_model_to_instrument_device(instModel_id, instDevice_id)
print "test_activateInstrumentSample: new InstrumentDevice id = %s (SA Req: L4-CI-SA-RQ-241) " %\
instDevice_id
port_agent_config = {
'device_addr': 'sbe37-simulator.oceanobservatories.org',
'device_port': 4001,
'process_type': PortAgentProcessType.UNIX,
'binary_path': "port_agent",
'command_port': 4003,
'data_port': 4000,
'log_level': 5,
}
instAgentInstance_obj = IonObject(RT.InstrumentAgentInstance, name='SBE37IMAgentInstance',
description="SBE37IMAgentInstance",
port_agent_config = port_agent_config)
instAgentInstance_id = self.imsclient.create_instrument_agent_instance(instAgentInstance_obj,
instAgent_id,
instDevice_id)
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
parsed_pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
parsed_stream_def_id = self.pubsubcli.create_stream_definition(name='parsed', parameter_dictionary_id=parsed_pdict_id)
raw_pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_raw_param_dict', id_only=True)
raw_stream_def_id = self.pubsubcli.create_stream_definition(name='raw', parameter_dictionary_id=raw_pdict_id)
#-------------------------------
# Create Raw and Parsed Data Products for the device
#-------------------------------
dp_obj = IonObject(RT.DataProduct,
name='the parsed data',
description='ctd stream test',
temporal_domain = tdom,
spatial_domain = sdom)
data_product_id1 = self.dpclient.create_data_product(data_product=dp_obj, stream_definition_id=parsed_stream_def_id)
print 'new dp_id = %s' % data_product_id1
self.damsclient.assign_data_product(input_resource_id=instDevice_id, data_product_id=data_product_id1)
# Retrieve the id of the OUTPUT stream from the out Data Product
stream_ids, _ = self.rrclient.find_objects(data_product_id1, PRED.hasStream, None, True)
print 'Data product streams1 = %s' % stream_ids
# Retrieve the id of the OUTPUT stream from the out Data Product
dataset_ids, _ = self.rrclient.find_objects(data_product_id1, PRED.hasDataset, RT.Dataset, True)
print 'Data set for data_product_id1 = %s' % dataset_ids[0]
self.parsed_dataset = dataset_ids[0]
#create the datastore at the beginning of each int test that persists data
self.get_datastore(self.parsed_dataset)
self.dpclient.activate_data_product_persistence(data_product_id=data_product_id1)
pid = self.create_logger('ctd_parsed', stream_ids[0] )
self.loggerpids.append(pid)
dp_obj = IonObject(RT.DataProduct,
name='the raw data',
description='raw stream test',
temporal_domain = tdom,
spatial_domain = sdom)
data_product_id2 = self.dpclient.create_data_product(data_product=dp_obj, stream_definition_id=raw_stream_def_id)
print 'new dp_id = %s' % str(data_product_id2)
self.damsclient.assign_data_product(input_resource_id=instDevice_id, data_product_id=data_product_id2)
self.dpclient.activate_data_product_persistence(data_product_id=data_product_id2)
# Retrieve the id of the OUTPUT stream from the out Data Product
stream_ids, _ = self.rrclient.find_objects(data_product_id2, PRED.hasStream, None, True)
print 'Data product streams2 = %s' % str(stream_ids)
# Retrieve the id of the OUTPUT stream from the out Data Product
dataset_ids, _ = self.rrclient.find_objects(data_product_id2, PRED.hasDataset, RT.Dataset, True)
print 'Data set for data_product_id2 = %s' % dataset_ids[0]
self.raw_dataset = dataset_ids[0]
def start_instrument_agent():
self.imsclient.start_instrument_agent_instance(instrument_agent_instance_id=instAgentInstance_id)
gevent.joinall([gevent.spawn(start_instrument_agent)])
self.addCleanup(self.imsclient.stop_instrument_agent_instance,
instrument_agent_instance_id=instAgentInstance_id)
#wait for start
instance_obj = self.imsclient.read_instrument_agent_instance(instAgentInstance_id)
gate = ProcessStateGate(self.processdispatchclient.read_process,
instance_obj.agent_process_id,
ProcessStateEnum.RUNNING)
self.assertTrue(gate.await(30), "The instrument agent instance (%s) did not spawn in 30 seconds" %
instance_obj.agent_process_id)
inst_agent_instance_obj = self.imsclient.read_instrument_agent_instance(instAgentInstance_id)
print 'Instrument agent instance obj: = %s' % str(inst_agent_instance_obj)
# Start a resource agent client to talk with the instrument agent.
self._ia_client = ResourceAgentClient(instDevice_id,
to_name=inst_agent_instance_obj.agent_process_id,
process=FakeProcess())
print "test_activateInstrumentSample: got ia client %s" % str(self._ia_client)
cmd = AgentCommand(command=ResourceAgentEvent.INITIALIZE)
retval = self._ia_client.execute_agent(cmd)
print "test_activateInstrumentSample: initialize %s" % str(retval)
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.INACTIVE)
print "(L4-CI-SA-RQ-334): Sending go_active command "
cmd = AgentCommand(command=ResourceAgentEvent.GO_ACTIVE)
reply = self._ia_client.execute_agent(cmd)
print "test_activateInstrument: return value from go_active %s" % str(reply)
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.IDLE)
cmd = AgentCommand(command=ResourceAgentEvent.GET_RESOURCE_STATE)
retval = self._ia_client.execute_agent(cmd)
state = retval.result
print "(L4-CI-SA-RQ-334): current state after sending go_active command %s" % str(state)
cmd = AgentCommand(command=ResourceAgentEvent.RUN)
reply = self._ia_client.execute_agent(cmd)
print "test_activateInstrumentSample: run %s" % str(reply)
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.COMMAND)
cmd = AgentCommand(command=ResourceAgentEvent.PAUSE)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.STOPPED)
cmd = AgentCommand(command=ResourceAgentEvent.RESUME)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.COMMAND)
cmd = AgentCommand(command=ResourceAgentEvent.CLEAR)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.IDLE)
cmd = AgentCommand(command=ResourceAgentEvent.RUN)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.COMMAND)
cmd = AgentCommand(command=SBE37ProtocolEvent.ACQUIRE_SAMPLE)
retval = self._ia_client.execute_resource(cmd)
print "test_activateInstrumentSample: return from sample %s" % str(retval)
retval = self._ia_client.execute_resource(cmd)
print "test_activateInstrumentSample: return from sample %s" % str(retval)
retval = self._ia_client.execute_resource(cmd)
print "test_activateInstrumentSample: return from sample %s" % str(retval)
print "test_activateInstrumentSample: calling reset "
cmd = AgentCommand(command=ResourceAgentEvent.RESET)
reply = self._ia_client.execute_agent(cmd)
print "test_activateInstrumentSample: return from reset %s" % str(reply)
#--------------------------------------------------------------------------------
# Now get the data in one chunk using an RPC Call to start_retreive
#--------------------------------------------------------------------------------
replay_data = self.dataretrieverclient.retrieve(self.parsed_dataset)
self.assertIsInstance(replay_data, Granule)
rdt = RecordDictionaryTool.load_from_granule(replay_data)
log.debug("RDT parsed: %s", str(rdt.pretty_print()) )
temp_vals = rdt['temp']
self.assertTrue(len(temp_vals) == 3)
replay_data = self.dataretrieverclient.retrieve(self.raw_dataset)
self.assertIsInstance(replay_data, Granule)
rdt = RecordDictionaryTool.load_from_granule(replay_data)
log.debug("RDT raw: %s", str(rdt.pretty_print()) )
raw_vals = rdt['raw']
self.assertTrue(len(raw_vals) == 3)
print "l4-ci-sa-rq-138"
"""
Physical resource control shall be subject to policy
Instrument management control capabilities shall be subject to policy
The actor accessing the control capabilities must be authorized to send commands.
note from maurice 2012-05-18: Talk to tim M to verify that this is policy. If it is then talk with Stephen to
get an example of a policy test and use that to create a test stub that will be
completed when we have instrument policies.
Tim M: The "actor", aka observatory operator, will access the instrument through ION.
"""
# #--------------------------------------------------------------------------------
# # Get the extended data product to see if it contains the granules
# #--------------------------------------------------------------------------------
# extended_product = self.dpclient.get_data_product_extension(data_product_id1)
# self.assertEqual(data_product_id1, extended_product._id)
# log.debug( "test_activateInstrumentSample: extended_product.computed.last_granule.value %s", str(extended_product.computed.last_granule.value) )
# log.debug( "test_activateInstrumentSample: extended_product.computed.recent_granules.value %s", str(extended_product.computed.recent_granules.value) )
# log.debug("test_activateInstrumentSample: extended_product.computed.provenance_product_list.value %s", str(extended_product.computed.provenance_product_list.value) )
#-------------------------------
# Deactivate loggers
#-------------------------------
for pid in self.loggerpids:
self.processdispatchclient.cancel_process(pid)
class DatasetManagementIntTest(IonIntegrationTestCase):
def setUp(self):
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.resource_registry = ResourceRegistryServiceClient()
self.dataset_management = DatasetManagementServiceClient()
def test_dataset_crud(self):
pdict_id = self.dataset_management.read_parameter_dictionary_by_name(
'ctd_parsed_param_dict', id_only=True)
tdom, sdom = time_series_domain()
dataset_id = self.dataset_management.create_dataset(
name='ctd_dataset',
parameter_dictionary_id=pdict_id,
spatial_domain=sdom.dump(),
temporal_domain=tdom.dump())
ds_obj = self.dataset_management.read_dataset(dataset_id)
self.assertEquals(ds_obj.name, 'ctd_dataset')
ds_obj.name = 'something different'
self.dataset_management.update_dataset(ds_obj)
self.dataset_management.register_dataset(dataset_id)
ds_obj2 = self.dataset_management.read_dataset(dataset_id)
self.assertEquals(ds_obj.name, ds_obj2.name)
self.assertTrue(ds_obj2.registered)
def test_context_crud(self):
context_ids = self.create_contexts()
context_id = context_ids.pop()
context = DatasetManagementService.get_parameter_context(context_id)
self.assertIsInstance(context, ParameterContext)
self.assertEquals(context.identifier, context_id)
self.dataset_management.delete_parameter_context(context_id)
with self.assertRaises(NotFound):
self.dataset_management.read_parameter_context(context_id)
def test_pfunc_crud(self):
contexts, funcs = self.create_pfuncs()
context_ids = [
context_id for ctxt, context_id in contexts.itervalues()
]
pdict_id = self.dataset_management.create_parameter_dictionary(
name='functional_pdict',
parameter_context_ids=context_ids,
temporal_context='time')
self.addCleanup(self.dataset_management.delete_parameter_dictionary,
pdict_id)
expr, expr_id = funcs['CONDWAT_L1']
func_class = DatasetManagementService.get_parameter_function(expr_id)
self.assertIsInstance(func_class, NumexprFunction)
def test_pdict_crud(self):
context_ids = self.create_contexts()
pdict_res_id = self.dataset_management.create_parameter_dictionary(
name='pdict1',
parameter_context_ids=context_ids,
temporal_context='time')
pdict_contexts = self.dataset_management.read_parameter_contexts(
parameter_dictionary_id=pdict_res_id, id_only=True)
pdict = DatasetManagementService.get_parameter_dictionary(pdict_res_id)
self.assertIsInstance(pdict, ParameterDictionary)
self.assertTrue('time_test' in pdict)
self.assertEquals(pdict.identifier, pdict_res_id)
self.assertEquals(set(pdict_contexts), set(context_ids))
self.dataset_management.delete_parameter_dictionary(
parameter_dictionary_id=pdict_res_id)
with self.assertRaises(NotFound):
self.dataset_management.read_parameter_dictionary(
parameter_dictionary_id=pdict_res_id)
def create_contexts(self):
context_ids = []
cond_ctxt = ParameterContext(
'conductivity_test',
param_type=QuantityType(value_encoding=np.float32))
cond_ctxt.uom = 'unknown'
cond_ctxt.fill_value = 0e0
context_ids.append(
self.dataset_management.create_parameter_context(
name='conductivity_test', parameter_context=cond_ctxt.dump()))
pres_ctxt = ParameterContext(
'pressure_test',
param_type=QuantityType(value_encoding=np.float32))
pres_ctxt.uom = 'Pascal'
pres_ctxt.fill_value = 0x0
context_ids.append(
self.dataset_management.create_parameter_context(
name='pressure_test', parameter_context=pres_ctxt.dump()))
sal_ctxt = ParameterContext(
'salinity_test',
param_type=QuantityType(value_encoding=np.float32))
sal_ctxt.uom = 'PSU'
sal_ctxt.fill_value = 0x0
context_ids.append(
self.dataset_management.create_parameter_context(
name='salinity_test', parameter_context=sal_ctxt.dump()))
temp_ctxt = ParameterContext(
'temp_test', param_type=QuantityType(value_encoding=np.float32))
temp_ctxt.uom = 'degree_Celsius'
temp_ctxt.fill_value = 0e0
context_ids.append(
self.dataset_management.create_parameter_context(
name='temp_test', parameter_context=temp_ctxt.dump()))
t_ctxt = ParameterContext(
'time_test', param_type=QuantityType(value_encoding=np.int64))
t_ctxt.uom = 'seconds since 1970-01-01'
t_ctxt.fill_value = 0x0
context_ids.append(
self.dataset_management.create_parameter_context(
name='time_test', parameter_context=t_ctxt.dump()))
return context_ids
def create_pfuncs(self):
contexts = {}
funcs = {}
t_ctxt = ParameterContext(
'TIME', param_type=QuantityType(value_encoding=np.dtype('int64')))
t_ctxt.uom = 'seconds since 01-01-1900'
t_ctxt_id = self.dataset_management.create_parameter_context(
name='test_TIME', parameter_context=t_ctxt.dump())
contexts['TIME'] = (t_ctxt, t_ctxt_id)
lat_ctxt = ParameterContext(
'LAT',
param_type=ConstantType(
QuantityType(value_encoding=np.dtype('float32'))),
fill_value=-9999)
lat_ctxt.axis = AxisTypeEnum.LAT
lat_ctxt.uom = 'degree_north'
lat_ctxt_id = self.dataset_management.create_parameter_context(
name='test_LAT', parameter_context=lat_ctxt.dump())
contexts['LAT'] = lat_ctxt, lat_ctxt_id
lon_ctxt = ParameterContext(
'LON',
param_type=ConstantType(
QuantityType(value_encoding=np.dtype('float32'))),
fill_value=-9999)
lon_ctxt.axis = AxisTypeEnum.LON
lon_ctxt.uom = 'degree_east'
lon_ctxt_id = self.dataset_management.create_parameter_context(
name='test_LON', parameter_context=lon_ctxt.dump())
contexts['LON'] = lon_ctxt, lon_ctxt_id
# Independent Parameters
# Temperature - values expected to be the decimal results of conversion from hex
temp_ctxt = ParameterContext(
'TEMPWAT_L0',
param_type=QuantityType(value_encoding=np.dtype('float32')),
fill_value=-9999)
temp_ctxt.uom = 'deg_C'
temp_ctxt_id = self.dataset_management.create_parameter_context(
name='test_TEMPWAT_L0', parameter_context=temp_ctxt.dump())
contexts['TEMPWAT_L0'] = temp_ctxt, temp_ctxt_id
# Conductivity - values expected to be the decimal results of conversion from hex
cond_ctxt = ParameterContext(
'CONDWAT_L0',
param_type=QuantityType(value_encoding=np.dtype('float32')),
fill_value=-9999)
cond_ctxt.uom = 'S m-1'
cond_ctxt_id = self.dataset_management.create_parameter_context(
name='test_CONDWAT_L0', parameter_context=cond_ctxt.dump())
contexts['CONDWAT_L0'] = cond_ctxt, cond_ctxt_id
# Pressure - values expected to be the decimal results of conversion from hex
press_ctxt = ParameterContext(
'PRESWAT_L0',
param_type=QuantityType(value_encoding=np.dtype('float32')),
fill_value=-9999)
press_ctxt.uom = 'dbar'
press_ctxt_id = self.dataset_management.create_parameter_context(
name='test_PRESWAT_L0', parameter_context=press_ctxt.dump())
contexts['PRESWAT_L0'] = press_ctxt, press_ctxt_id
# Dependent Parameters
# TEMPWAT_L1 = (TEMPWAT_L0 / 10000) - 10
tl1_func = '(T / 10000) - 10'
expr = NumexprFunction('TEMPWAT_L1', tl1_func, ['T'])
expr_id = self.dataset_management.create_parameter_function(
name='test_TEMPWAT_L1', parameter_function=expr.dump())
funcs['TEMPWAT_L1'] = expr, expr_id
tl1_pmap = {'T': 'TEMPWAT_L0'}
expr.param_map = tl1_pmap
tempL1_ctxt = ParameterContext(
'TEMPWAT_L1',
param_type=ParameterFunctionType(function=expr),
variability=VariabilityEnum.TEMPORAL)
tempL1_ctxt.uom = 'deg_C'
tempL1_ctxt_id = self.dataset_management.create_parameter_context(
name='test_TEMPWAT_L1',
parameter_context=tempL1_ctxt.dump(),
parameter_function_id=expr_id)
contexts['TEMPWAT_L1'] = tempL1_ctxt, tempL1_ctxt_id
# CONDWAT_L1 = (CONDWAT_L0 / 100000) - 0.5
cl1_func = '(C / 100000) - 0.5'
expr = NumexprFunction('CONDWAT_L1', cl1_func, ['C'])
expr_id = self.dataset_management.create_parameter_function(
name='test_CONDWAT_L1', parameter_function=expr.dump())
funcs['CONDWAT_L1'] = expr, expr_id
cl1_pmap = {'C': 'CONDWAT_L0'}
expr.param_map = cl1_pmap
condL1_ctxt = ParameterContext(
'CONDWAT_L1',
param_type=ParameterFunctionType(function=expr),
variability=VariabilityEnum.TEMPORAL)
condL1_ctxt.uom = 'S m-1'
condL1_ctxt_id = self.dataset_management.create_parameter_context(
name='test_CONDWAT_L1',
parameter_context=condL1_ctxt.dump(),
parameter_function_id=expr_id)
contexts['CONDWAT_L1'] = condL1_ctxt, condL1_ctxt_id
# Equation uses p_range, which is a calibration coefficient - Fixing to 679.34040721
# PRESWAT_L1 = (PRESWAT_L0 * p_range / (0.85 * 65536)) - (0.05 * p_range)
pl1_func = '(P * p_range / (0.85 * 65536)) - (0.05 * p_range)'
expr = NumexprFunction('PRESWAT_L1', pl1_func, ['P', 'p_range'])
expr_id = self.dataset_management.create_parameter_function(
name='test_PRESWAT_L1', parameter_function=expr.dump())
funcs['PRESWAT_L1'] = expr, expr_id
pl1_pmap = {'P': 'PRESWAT_L0', 'p_range': 679.34040721}
expr.param_map = pl1_pmap
presL1_ctxt = ParameterContext(
'PRESWAT_L1',
param_type=ParameterFunctionType(function=expr),
variability=VariabilityEnum.TEMPORAL)
presL1_ctxt.uom = 'S m-1'
presL1_ctxt_id = self.dataset_management.create_parameter_context(
name='test_CONDWAT_L1',
parameter_context=presL1_ctxt.dump(),
parameter_function_id=expr_id)
contexts['PRESWAT_L1'] = presL1_ctxt, presL1_ctxt_id
# Density & practical salinity calucluated using the Gibbs Seawater library - available via python-gsw project:
# https://code.google.com/p/python-gsw/ & http://pypi.python.org/pypi/gsw/3.0.1
# PRACSAL = gsw.SP_from_C((CONDWAT_L1 * 10), TEMPWAT_L1, PRESWAT_L1)
owner = 'gsw'
sal_func = 'SP_from_C'
sal_arglist = ['C', 't', 'p']
expr = PythonFunction('PRACSAL', owner, sal_func, sal_arglist)
expr_id = self.dataset_management.create_parameter_function(
name='test_PRACSAL', parameter_function=expr.dump())
funcs['PRACSAL'] = expr, expr_id
# A magic function that may or may not exist actually forms the line below at runtime.
sal_pmap = {
'C':
NumexprFunction('CONDWAT_L1*10',
'C*10', ['C'],
param_map={'C': 'CONDWAT_L1'}),
't':
'TEMPWAT_L1',
'p':
'PRESWAT_L1'
}
expr.param_map = sal_pmap
sal_ctxt = ParameterContext('PRACSAL',
param_type=ParameterFunctionType(expr),
variability=VariabilityEnum.TEMPORAL)
sal_ctxt.uom = 'g kg-1'
sal_ctxt_id = self.dataset_management.create_parameter_context(
name='test_PRACSAL',
parameter_context=sal_ctxt.dump(),
parameter_function_id=expr_id)
contexts['PRACSAL'] = sal_ctxt, sal_ctxt_id
# absolute_salinity = gsw.SA_from_SP(PRACSAL, PRESWAT_L1, longitude, latitude)
# conservative_temperature = gsw.CT_from_t(absolute_salinity, TEMPWAT_L1, PRESWAT_L1)
# DENSITY = gsw.rho(absolute_salinity, conservative_temperature, PRESWAT_L1)
owner = 'gsw'
abs_sal_expr = PythonFunction('abs_sal', owner, 'SA_from_SP',
['PRACSAL', 'PRESWAT_L1', 'LON', 'LAT'])
cons_temp_expr = PythonFunction(
'cons_temp', owner, 'CT_from_t',
[abs_sal_expr, 'TEMPWAT_L1', 'PRESWAT_L1'])
dens_expr = PythonFunction(
'DENSITY', owner, 'rho',
[abs_sal_expr, cons_temp_expr, 'PRESWAT_L1'])
dens_ctxt = ParameterContext(
'DENSITY',
param_type=ParameterFunctionType(dens_expr),
variability=VariabilityEnum.TEMPORAL)
dens_ctxt.uom = 'kg m-3'
dens_ctxt_id = self.dataset_management.create_parameter_context(
name='test_DENSITY', parameter_context=dens_ctxt.dump())
contexts['DENSITY'] = dens_ctxt, dens_ctxt_id
return contexts, funcs
def test_verify_contexts(self):
pdict_id = self.dataset_management.read_parameter_dictionary_by_name(
name='ctd_parsed_param_dict', id_only=True)
pcontexts = self.dataset_management.read_parameter_contexts(
parameter_dictionary_id=pdict_id)
for pcontext in pcontexts:
self.assertTrue('fill_value' in pcontext)
self.assertTrue('reference_urls' in pcontext)
self.assertTrue('internal_name' in pcontext)
self.assertTrue('display_name' in pcontext)
self.assertTrue('standard_name' in pcontext)
self.assertTrue('ooi_short_name' in pcontext)
self.assertTrue('description' in pcontext)
self.assertTrue('precision' in pcontext)
class DatasetManagementIntTest(IonIntegrationTestCase):
def setUp(self):
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.resource_registry = ResourceRegistryServiceClient()
self.dataset_management = DatasetManagementServiceClient()
def test_dataset_crud(self):
pdict_id = self.dataset_management.read_parameter_dictionary_by_name(
'ctd_parsed_param_dict', id_only=True)
dataset = Dataset(name='ctd_dataset')
dataset_id = self.dataset_management.create_dataset(
dataset, parameter_dictionary_id=pdict_id)
ds_obj = self.dataset_management.read_dataset(dataset_id)
self.assertEquals(ds_obj.name, 'ctd_dataset')
ds_obj.name = 'something different'
self.dataset_management.update_dataset(ds_obj)
ds_obj2 = self.dataset_management.read_dataset(dataset_id)
self.assertEquals(ds_obj.name, ds_obj2.name)
def test_context_crud(self):
context_ids = self.create_contexts()
context_id = context_ids.pop()
ctxt = self.dataset_management.read_parameter_context(context_id)
context = DatasetManagementService.get_coverage_parameter(ctxt)
self.assertIsInstance(context, CoverageParameterContext)
self.dataset_management.delete_parameter_context(context_id)
with self.assertRaises(NotFound):
self.dataset_management.read_parameter_context(context_id)
def test_pfunc_crud(self):
contexts, funcs = self.create_pfuncs()
context_ids = [context_id for context_id in contexts.itervalues()]
pdict_id = self.dataset_management.create_parameter_dictionary(
name='functional_pdict',
parameter_context_ids=context_ids,
temporal_context='time')
self.addCleanup(self.dataset_management.delete_parameter_dictionary,
pdict_id)
expr_id = funcs['CONDWAT_L1']
expr = self.dataset_management.read_parameter_function(expr_id)
func_class = DatasetManagementService.get_coverage_function(expr)
self.assertIsInstance(func_class, NumexprFunction)
def test_pdict_crud(self):
context_ids = self.create_contexts()
pdict_res_id = self.dataset_management.create_parameter_dictionary(
name='pdict1',
parameter_context_ids=context_ids,
temporal_context='time')
pdict_contexts = self.dataset_management.read_parameter_contexts(
parameter_dictionary_id=pdict_res_id, id_only=True)
pdict = DatasetManagementService.get_parameter_dictionary(pdict_res_id)
self.assertIsInstance(pdict, ParameterDictionary)
self.assertTrue('time_test' in pdict)
self.assertEquals(pdict.identifier, pdict_res_id)
self.assertEquals(set(pdict_contexts), set(context_ids))
self.dataset_management.delete_parameter_dictionary(
parameter_dictionary_id=pdict_res_id)
with self.assertRaises(NotFound):
self.dataset_management.read_parameter_dictionary(
parameter_dictionary_id=pdict_res_id)
def create_contexts(self):
context_ids = []
cond = ParameterContext(name='condictivity_test',
parameter_type='quantity',
value_encoding='float32',
units='1',
fill_value=0)
context_ids.append(self.dataset_management.create_parameter(cond))
pres = ParameterContext(name='pressure_test',
parameter_type='quantity',
value_encoding='float32',
units='Pa',
fill_value=0)
context_ids.append(self.dataset_management.create_parameter(pres))
sal = ParameterContext(name='salinity_test',
parameter_type='quantity',
value_encoding='float32',
units='psu',
fill_value=0)
context_ids.append(self.dataset_management.create_parameter(sal))
temp = ParameterContext(name='temp_test',
parameter_type='quantity',
value_encoding='float32',
units='degree_C',
fill_value=0)
context_ids.append(self.dataset_management.create_parameter(temp))
time_test = ParameterContext(name='time_test',
parameter_type='quantity',
value_encoding='float32',
units='seconds since 1970-01-01',
fill_value=0)
context_ids.append(self.dataset_management.create_parameter(time_test))
return context_ids
def create_pfuncs(self):
contexts = {}
funcs = {}
time_ = ParameterContext(name='TIME',
parameter_type='quantity',
value_encoding='float32',
units='seconds since 1900-01-01',
fill_value=0)
t_ctxt_id = self.dataset_management.create_parameter(time_)
contexts['TIME'] = t_ctxt_id
lat = ParameterContext(name='LAT',
parameter_type='sparse',
value_encoding='float32',
units='degrees_north',
fill_value=-9999.)
lat_ctxt_id = self.dataset_management.create_parameter(lat)
contexts['LAT'] = lat_ctxt_id
lon = ParameterContext(name='LON',
parameter_type="sparse",
value_encoding='float32',
units='degrees_east',
fill_value=-9999)
lon_ctxt_id = self.dataset_management.create_parameter(lon)
contexts['LON'] = lon_ctxt_id
# Independent Parameters
# Temperature - values expected to be the decimal results of conversion from hex
temp = ParameterContext(name='TEMPWAT_L0',
parameter_type='quantity',
value_encoding='float32',
units='deg_C')
temp_ctxt_id = self.dataset_management.create_parameter(temp)
contexts['TEMPWAT_L0'] = temp_ctxt_id
# Conductivity - values expected to be the decimal results of conversion from hex
cond = ParameterContext(name='CONDWAT_L0',
parameter_type='quantity',
value_encoding='float32',
units='S m-1')
cond_ctxt_id = self.dataset_management.create_parameter(cond)
contexts['CONDWAT_L0'] = cond_ctxt_id
# Pressure - values expected to be the decimal results of conversion from hex
press = ParameterContext(name='PRESWAT_L0',
parameter_type='quantity',
value_encoding='float32',
units='dbar')
press_ctxt_id = self.dataset_management.create_parameter(press)
contexts['PRESWAT_L0'] = press_ctxt_id
# Dependent Parameters
# TEMPWAT_L1 = (TEMPWAT_L0 / 10000) - 10
tl1_func = '(T / 10000) - 10'
tempwat_f = ParameterFunction(name='TEMPWAT_L1',
function_type=PFT.NUMEXPR,
function=tl1_func,
args=['T'])
expr_id = self.dataset_management.create_parameter_function(tempwat_f)
funcs['TEMPWAT_L1'] = expr_id
tl1_pmap = {'T': 'TEMPWAT_L0'}
tempL1 = ParameterContext(name='TEMPWAT_L1',
parameter_type='function',
parameter_function_id=expr_id,
parameter_function_map=tl1_pmap,
value_encoding='float32',
units='deg_C')
tempL1_ctxt_id = self.dataset_management.create_parameter(tempL1)
contexts['TEMPWAT_L1'] = tempL1_ctxt_id
# CONDWAT_L1 = (CONDWAT_L0 / 100000) - 0.5
cl1_func = '(C / 100000) - 0.5'
condwat_f = ParameterFunction(name='CONDWAT_L1',
function_type=PFT.NUMEXPR,
function=cl1_func,
args=['C'])
expr_id = self.dataset_management.create_parameter_function(condwat_f)
funcs['CONDWAT_L1'] = expr_id
cl1_pmap = {'C': 'CONDWAT_L0'}
condL1 = ParameterContext(name='CONDWAT_L1',
parameter_type='function',
parameter_function_id=expr_id,
parameter_function_map=cl1_pmap,
value_encoding='float32',
units='S m-1')
condL1_ctxt_id = self.dataset_management.create_parameter(condL1)
contexts['CONDWAT_L1'] = condL1_ctxt_id
# Equation uses p_range, which is a calibration coefficient - Fixing to 679.34040721
# PRESWAT_L1 = (PRESWAT_L0 * p_range / (0.85 * 65536)) - (0.05 * p_range)
pl1_func = '(P * p_range / (0.85 * 65536)) - (0.05 * p_range)'
preswat_f = ParameterFunction(name='PRESWAT_L1',
function_type=PFT.NUMEXPR,
function=pl1_func,
args=['P', 'p_range'])
expr_id = self.dataset_management.create_parameter_function(preswat_f)
funcs['PRESWAT_L1'] = expr_id
pl1_pmap = {'P': 'PRESWAT_L0', 'p_range': 679.34040721}
presL1 = ParameterContext(name='PRESWAT_L1',
parameter_type='function',
parameter_function_id=expr_id,
parameter_function_map=pl1_pmap,
value_encoding='float32',
units='dbar')
presL1_ctxt_id = self.dataset_management.create_parameter(presL1)
contexts['PRESWAT_L1'] = presL1_ctxt_id
# A magic function that may or may not exist actually forms the line below at runtime.
cond_f = ParameterFunction(name='condwat10',
function_type=PFT.NUMEXPR,
function='C*10',
args=['C'])
expr_id = self.dataset_management.create_parameter_function(cond_f)
cond10 = ParameterContext(name='c10',
parameter_type='function',
parameter_function_id=expr_id,
parameter_function_map={'C': 'CONDWAT_L1'},
value_encoding='float32',
units='1')
cond10_id = self.dataset_management.create_parameter(cond10)
contexts['C10'] = cond10_id
# Density & practical salinity calucluated using the Gibbs Seawater library - available via python-gsw project:
# https://code.google.com/p/python-gsw/ & http://pypi.python.org/pypi/gsw/3.0.1
# PRACSAL = gsw.SP_from_C((CONDWAT_L1 * 10), TEMPWAT_L1, PRESWAT_L1)
owner = 'gsw'
sal_func = 'SP_from_C'
sal_arglist = ['C', 't', 'p']
pracsal_f = ParameterFunction(name='PRACSAL',
function_type=PFT.PYTHON,
owner=owner,
function=sal_func,
args=sal_arglist)
expr_id = self.dataset_management.create_parameter_function(pracsal_f)
funcs['PRACSAL'] = expr_id
sal_pmap = {'C': 'c10', 't': 'TEMPWAT_L1', 'p': 'PRESWAT_L1'}
sal_ctxt = ParameterContext(name='PRACSAL',
parameter_type='function',
parameter_function_id=expr_id,
parameter_function_map=sal_pmap,
value_encoding='float32',
units='g kg-1')
sal_ctxt_id = self.dataset_management.create_parameter(sal_ctxt)
contexts['PRACSAL'] = sal_ctxt_id
# absolute_salinity = gsw.SA_from_SP(PRACSAL, PRESWAT_L1, longitude, latitude)
# conservative_temperature = gsw.CT_from_t(absolute_salinity, TEMPWAT_L1, PRESWAT_L1)
# DENSITY = gsw.rho(absolute_salinity, conservative_temperature, PRESWAT_L1)
return contexts, funcs
def test_verify_contexts(self):
pdict_id = self.dataset_management.read_parameter_dictionary_by_name(
name='ctd_parsed_param_dict', id_only=True)
pcontexts = self.dataset_management.read_parameter_contexts(
parameter_dictionary_id=pdict_id)
for pcontext in pcontexts:
self.assertTrue('fill_value' in pcontext)
self.assertTrue('reference_urls' in pcontext)
self.assertTrue('internal_name' in pcontext)
self.assertTrue('display_name' in pcontext)
self.assertTrue('standard_name' in pcontext)
self.assertTrue('ooi_short_name' in pcontext)
self.assertTrue('description' in pcontext)
self.assertTrue('precision' in pcontext)
class DirectCoverageAccess(object):
def __init__(self):
self.ingestion_management = IngestionManagementServiceClient()
self.resource_registry = ResourceRegistryServiceClient()
self.data_product_management = DataProductManagementServiceClient()
self.dataset_management = DatasetManagementServiceClient()
self._paused_streams = []
self._w_covs = {}
self._ro_covs = {}
self._context_managed = False
def __enter__(self):
self._context_managed = True
return self
def __exit__(self, exc_type, exc_val, exc_tb):
self.clean_up()
def clean_up(self, ro_covs=False, w_covs=False, streams=False):
if not ro_covs and not w_covs and not streams:
ro_covs = w_covs = streams = True
if ro_covs:
# Close any open read-only coverages
for dsid, c in self._ro_covs.iteritems():
c.close()
if w_covs:
# Close any open write coverages
for sid, c in self._w_covs.iteritems():
c.close()
if streams:
# Resume any paused ingestion workers
for s in self._paused_streams:
self.resume_ingestion(s)
def get_ingestion_config(self):
'''
Grab the ingestion configuration from the resource registry
'''
# The ingestion configuration should have been created by the bootstrap service
# which is configured through r2deploy.yml
ingest_configs, _ = self.resource_registry.find_resources(restype=RT.IngestionConfiguration,id_only=True)
return ingest_configs[0]
def get_coverage_path(self, dataset_id):
pth = DatasetManagementService._get_coverage_path(dataset_id)
if not os.path.exists(pth):
raise ValueError('Coverage with id \'{0}\' does not exist!'.format(dataset_id))
return pth
def pause_ingestion(self, stream_id):
if not self._context_managed:
warn_user('Warning: Pausing ingestion when not using a context manager is potentially unsafe - '
'be sure to resume ingestion for all streams by calling self.clean_up(streams=True)')
if stream_id not in self._paused_streams:
self.ingestion_management.pause_data_stream(stream_id, self.get_ingestion_config())
self._paused_streams.append(stream_id)
def resume_ingestion(self, stream_id):
if stream_id in self._paused_streams:
self.ingestion_management.resume_data_stream(stream_id, self.get_ingestion_config())
self._paused_streams.remove(stream_id)
def get_stream_id(self, dataset_id):
sid, _ = self.resource_registry.find_objects(dataset_id, predicate=PRED.hasStream, id_only=True)
return sid[0] if len(sid) > 0 else None
def get_dataset_object(self, dataset_id):
return self.dataset_management.read_dataset(dataset_id=dataset_id)
def get_data_product_object(self, data_product_id):
return self.data_product_management.read_data_product(data_product_id=data_product_id)
def get_read_only_coverage(self, dataset_id):
if not self._context_managed:
warn_user('Warning: Coverages will remain open until they are closed or go out of scope - '
'be sure to close coverage instances when you are finished working with them or call self.clean_up(ro_covs=True)')
# Check if we already have the coverage
if dataset_id in self._ro_covs:
cov = self._ro_covs[dataset_id]
# If it's not closed, return it
if not cov.closed:
return cov
# Otherwise, remove it from self._ro_covs and carry on
del self._ro_covs[dataset_id]
self._ro_covs[dataset_id] = DatasetManagementService._get_coverage(dataset_id, mode='r')
return self._ro_covs[dataset_id]
def get_editable_coverage(self, dataset_id):
sid = self.get_stream_id(dataset_id)
# Check if we already have the coverage
if sid in self._paused_streams:
cov = self._w_covs[sid]
# If it's not closed, return it
if not cov.closed:
return cov
# Otherwise, remove it from self._ro_covs and carry on
del self._w_covs[sid]
self.pause_ingestion(sid)
if not self._context_managed:
warn_user('Warning: Coverages will remain open until they are closed or go out of scope - '
'be sure to close coverage instances when you are finished working with them or call self.clean_up(w_covs=True)')
try:
self._w_covs[sid] = DatasetManagementService._get_simplex_coverage(dataset_id, mode='w')
return self._w_covs[sid]
except:
self.resume_ingestion(sid)
raise
@classmethod
def get_parser(cls, data_file_path, config_path=None):
return SimpleDelimitedParser.get_parser(data_file_path, config_path=config_path)
def manual_upload(self, dataset_id, data_file_path, config_path=None):
# First, ensure we can get a parser and parse the data file
parser = self.get_parser(data_file_path, config_path)
dat = parser.parse()
# Get the coverage
with self.get_editable_coverage(dataset_id) as cov:
# Find the indices for the times in the data file
try:
time_dat = dat[cov.temporal_parameter_name]
except ValueError, ve:
if ve.message == 'field named %s not found.' % cov.temporal_parameter_name:
raise ValueError('Temporal parameter name {0} not in upload data'.format(cov.temporal_parameter_name))
else:
raise
cov_times = cov.get_time_values()
tinds = [utils.find_nearest_index(cov_times, ti) for ti in time_dat]
sl = (tinds,)
cparams = cov.list_parameters()
for n in dat.dtype.names:
if n != cov.temporal_parameter_name:
if n in cparams:
cov.set_parameter_values(n, dat[n], sl)
else:
warn_user('Skipping column \'%s\': matching parameter not found in coverage!' % n)
class TestDriverEgg(IonIntegrationTestCase):
def setUp(self):
# Start container
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
# Now create client to DataProductManagementService
self.rrclient = ResourceRegistryServiceClient(node=self.container.node)
self.damsclient = DataAcquisitionManagementServiceClient(node=self.container.node)
self.pubsubcli = PubsubManagementServiceClient(node=self.container.node)
self.imsclient = InstrumentManagementServiceClient(node=self.container.node)
self.dpclient = DataProductManagementServiceClient(node=self.container.node)
self.datasetclient = DatasetManagementServiceClient(node=self.container.node)
self.processdispatchclient = ProcessDispatcherServiceClient(node=self.container.node)
self.dataprocessclient = DataProcessManagementServiceClient(node=self.container.node)
self.dataproductclient = DataProductManagementServiceClient(node=self.container.node)
self.dataretrieverclient = DataRetrieverServiceClient(node=self.container.node)
self.dataset_management = DatasetManagementServiceClient()
#setup listerner vars
self._data_greenlets = []
self._no_samples = None
self._samples_received = []
self.event_publisher = EventPublisher()
def get_datastore(self, dataset_id):
dataset = self.datasetclient.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def get_streamConfigs(self):
raw_config = StreamConfiguration(stream_name='raw',
parameter_dictionary_name='ctd_raw_param_dict',
records_per_granule=2,
granule_publish_rate=5 )
parsed_config = StreamConfiguration(stream_name='parsed',
parameter_dictionary_name='ctd_parsed_param_dict',
records_per_granule=2,
granule_publish_rate=5 )
return raw_config, parsed_config
##########################
#
# The following tests generate different agent configs and pass them to a common base test script
#
###########################
@unittest.skip("this test can't be run from coi services. it is missing dependencies")
def test_driverLaunchModuleNoURI(self):
raw_config, parsed_config = self.get_streamConfigs()
instAgent_obj = IonObject(RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
driver_module="mi.instrument.seabird.sbe37smb.ooicore.driver",
driver_class="SBE37Driver",
stream_configurations = [raw_config, parsed_config])
self.base_activateInstrumentSample(instAgent_obj)
def test_driverLaunchModuleWithURI(self):
raw_config, parsed_config = self.get_streamConfigs()
instAgent_obj = IonObject(RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
driver_module="mi.instrument.seabird.sbe37smb.ooicore.driver",
driver_class="SBE37Driver",
driver_uri=DRV_URI_GOOD,
stream_configurations = [raw_config, parsed_config])
self.base_activateInstrumentSample(instAgent_obj)
def test_driverLaunchNoModuleOnlyURI(self):
raw_config, parsed_config = self.get_streamConfigs()
instAgent_obj = IonObject(RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
#driver_module="mi.instrument.seabird.sbe37smb.ooicore.driver",
#driver_class="SBE37Driver",
driver_uri=DRV_URI_GOOD,
stream_configurations = [raw_config, parsed_config])
self.base_activateInstrumentSample(instAgent_obj)
def test_driverLaunchBogusModuleWithURI(self):
raw_config, parsed_config = self.get_streamConfigs()
instAgent_obj = IonObject(RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
driver_module="bogus",
driver_class="Bogus",
driver_uri=DRV_URI_GOOD,
stream_configurations = [raw_config, parsed_config])
self.base_activateInstrumentSample(instAgent_obj)
@unittest.skip("Launches an egg 'process' even though the egg download should produce error 404")
def test_driverLaunchNoModule404URI(self):
raw_config, parsed_config = self.get_streamConfigs()
instAgent_obj = IonObject(RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
#driver_module="mi.instrument.seabird.sbe37smb.ooicore.driver",
#driver_class="SBE37Driver",
driver_uri=DRV_URI_404,
stream_configurations = [raw_config, parsed_config])
self.base_activateInstrumentSample(instAgent_obj, False)
def test_driverLaunchNoModuleBadEggURI(self):
raw_config, parsed_config = self.get_streamConfigs()
instAgent_obj = IonObject(RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
#driver_module="mi.instrument.seabird.sbe37smb.ooicore.driver",
#driver_class="SBE37Driver",
driver_uri=DRV_URI_BAD,
stream_configurations = [raw_config, parsed_config])
self.base_activateInstrumentSample(instAgent_obj, True, False)
def base_activateInstrumentSample(self, instAgent_obj, expect_launch=True, expect_command=True):
"""
This method runs a test of launching a driver with a given agent configuration
"""
# Create InstrumentModel
instModel_obj = IonObject(RT.InstrumentModel,
name='SBE37IMModel',
description="SBE37IMModel")
instModel_id = self.imsclient.create_instrument_model(instModel_obj)
print 'new InstrumentModel id = %s ' % instModel_id
# Create InstrumentAgent
instAgent_id = self.imsclient.create_instrument_agent(instAgent_obj)
print 'new InstrumentAgent id = %s' % instAgent_id
self.imsclient.assign_instrument_model_to_instrument_agent(instModel_id, instAgent_id)
# Create InstrumentDevice
instDevice_obj = IonObject(RT.InstrumentDevice,
name='SBE37IMDevice',
description="SBE37IMDevice",
serial_number="12345" )
instDevice_id = self.imsclient.create_instrument_device(instrument_device=instDevice_obj)
self.imsclient.assign_instrument_model_to_instrument_device(instModel_id, instDevice_id)
port_agent_config = {
'device_addr': CFG.device.sbe37.host,
'device_port': CFG.device.sbe37.port,
'process_type': PortAgentProcessType.UNIX,
'binary_path': "port_agent",
'port_agent_addr': 'localhost',
'command_port': CFG.device.sbe37.port_agent_cmd_port,
'data_port': CFG.device.sbe37.port_agent_data_port,
'log_level': 5,
'type': PortAgentType.ETHERNET
}
instAgentInstance_obj = IonObject(RT.InstrumentAgentInstance, name='SBE37IMAgentInstance',
description="SBE37IMAgentInstance",
port_agent_config = port_agent_config)
instAgentInstance_id = self.imsclient.create_instrument_agent_instance(instAgentInstance_obj,
instAgent_id,
instDevice_id)
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
parsed_pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict',
id_only=True)
raw_pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_raw_param_dict',
id_only=True)
parsed_stream_def_id = self.pubsubcli.create_stream_definition(name='parsed',
parameter_dictionary_id=parsed_pdict_id)
raw_stream_def_id = self.pubsubcli.create_stream_definition(name='raw',
parameter_dictionary_id=raw_pdict_id)
#-------------------------------
# Create Raw and Parsed Data Products for the device
#-------------------------------
dp_obj = IonObject(RT.DataProduct,
name='the parsed data',
description='ctd stream test',
temporal_domain = tdom,
spatial_domain = sdom)
data_product_id1 = self.dpclient.create_data_product(data_product=dp_obj, stream_definition_id=parsed_stream_def_id)
print 'new dp_id = %s' % data_product_id1
self.dpclient.activate_data_product_persistence(data_product_id=data_product_id1)
self.damsclient.assign_data_product(input_resource_id=instDevice_id, data_product_id=data_product_id1)
# Retrieve the id of the OUTPUT stream from the out Data Product
stream_ids, _ = self.rrclient.find_objects(data_product_id1, PRED.hasStream, None, True)
print 'Data product streams1 = %s' % stream_ids
# Retrieve the id of the OUTPUT stream from the out Data Product
dataset_ids, _ = self.rrclient.find_objects(data_product_id1, PRED.hasDataset, RT.Dataset, True)
print 'Data set for data_product_id1 = %s' % dataset_ids[0]
self.parsed_dataset = dataset_ids[0]
#create the datastore at the beginning of each int test that persists data
self.get_datastore(self.parsed_dataset)
dp_obj = IonObject(RT.DataProduct,
name='the raw data',
description='raw stream test',
temporal_domain = tdom,
spatial_domain = sdom)
data_product_id2 = self.dpclient.create_data_product(data_product=dp_obj,
stream_definition_id=raw_stream_def_id)
print 'new dp_id = %s' % str(data_product_id2)
self.damsclient.assign_data_product(input_resource_id=instDevice_id, data_product_id=data_product_id2)
self.dpclient.activate_data_product_persistence(data_product_id=data_product_id2)
# Retrieve the id of the OUTPUT stream from the out Data Product
stream_ids, _ = self.rrclient.find_objects(data_product_id2, PRED.hasStream, None, True)
print 'Data product streams2 = %s' % str(stream_ids)
# Retrieve the id of the OUTPUT stream from the out Data Product
dataset_ids, _ = self.rrclient.find_objects(data_product_id2, PRED.hasDataset, RT.Dataset, True)
print 'Data set for data_product_id2 = %s' % dataset_ids[0]
self.raw_dataset = dataset_ids[0]
# add start/stop for instrument agent
gevent.joinall([gevent.spawn(lambda:
self.imsclient.start_instrument_agent_instance(instrument_agent_instance_id=instAgentInstance_id))])
self.addCleanup(self.imsclient.stop_instrument_agent_instance,
instrument_agent_instance_id=instAgentInstance_id)
#wait for start
instance_obj = self.imsclient.read_instrument_agent_instance(instAgentInstance_id)
print "Agent process id is '%s'" % str(instance_obj.agent_process_id)
self.assertTrue(instance_obj.agent_process_id)
gate = ProcessStateGate(self.processdispatchclient.read_process,
instance_obj.agent_process_id,
ProcessStateEnum.RUNNING)
if not expect_launch:
self.assertFalse(gate.await(30), "The instance (%s) of bogus instrument agent spawned in 30 seconds ?!?" %
instance_obj.agent_process_id)
return
self.assertTrue(gate.await(30), "The instrument agent instance (%s) did not spawn in 30 seconds" %
instance_obj.agent_process_id)
print "Instrument Agent Instance successfully triggered ProcessStateGate as RUNNING"
inst_agent_instance_obj = self.imsclient.read_instrument_agent_instance(instAgentInstance_id)
#print 'Instrument agent instance obj: = %s' % str(inst_agent_instance_obj)
# Start a resource agent client to talk with the instrument agent.
self._ia_client = ResourceAgentClient(instDevice_id,
to_name=inst_agent_instance_obj.agent_process_id,
process=FakeProcess())
print "ResourceAgentClient created: %s" % str(self._ia_client)
print "Sending command=ResourceAgentEvent.INITIALIZE"
cmd = AgentCommand(command=ResourceAgentEvent.INITIALIZE)
if not expect_command:
self.assertRaises(ServerError, self._ia_client.execute_agent, cmd)
return
retval = self._ia_client.execute_agent(cmd)
print "Result of INITIALIZE: %s" % str(retval)
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.INACTIVE)
cmd = AgentCommand(command=ResourceAgentEvent.GO_ACTIVE)
reply = self._ia_client.execute_agent(cmd)
self.assertTrue(reply.status == 0)
cmd = AgentCommand(command=ResourceAgentEvent.GET_RESOURCE_STATE)
retval = self._ia_client.execute_agent(cmd)
state = retval.result
self.assertTrue(state, 'DRIVER_STATE_COMMAND')
cmd = AgentCommand(command=ResourceAgentEvent.RUN)
reply = self._ia_client.execute_agent(cmd)
self.assertTrue(reply.status == 0)
cmd = AgentCommand(command=SBE37ProtocolEvent.START_AUTOSAMPLE)
retval = self._ia_client.execute_resource(cmd)
# This gevent sleep is there to test the autosample time, which will show something different from default
# only if the instrument runs for over a minute
gevent.sleep(90)
extended_instrument = self.imsclient.get_instrument_device_extension(instrument_device_id=instDevice_id)
self.assertIsInstance(extended_instrument.computed.uptime, ComputedStringValue)
autosample_string = extended_instrument.computed.uptime.value
autosampling_time = int(autosample_string.split()[4])
self.assertTrue(autosampling_time > 0)
cmd = AgentCommand(command=SBE37ProtocolEvent.STOP_AUTOSAMPLE)
retval = self._ia_client.execute_resource(cmd)
print "Sending command=ResourceAgentEvent.RESET"
cmd = AgentCommand(command=ResourceAgentEvent.RESET)
reply = self._ia_client.execute_agent(cmd)
print "Result of RESET: %s" % str(reply)
class TestDataProductManagementServiceIntegration(IonIntegrationTestCase):
def setUp(self):
# Start container
#print 'instantiating container'
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.dpsc_cli = DataProductManagementServiceClient()
self.rrclient = ResourceRegistryServiceClient()
self.damsclient = DataAcquisitionManagementServiceClient()
self.pubsubcli = PubsubManagementServiceClient()
self.ingestclient = IngestionManagementServiceClient()
self.process_dispatcher = ProcessDispatcherServiceClient()
self.dataset_management = DatasetManagementServiceClient()
self.unsc = UserNotificationServiceClient()
self.data_retriever = DataRetrieverServiceClient()
#------------------------------------------
# Create the environment
#------------------------------------------
self.stream_def_id = self.pubsubcli.create_stream_definition(
name='SBE37_CDM')
self.process_definitions = {}
ingestion_worker_definition = ProcessDefinition(
name='ingestion worker')
ingestion_worker_definition.executable = {
'module':
'ion.processes.data.ingestion.science_granule_ingestion_worker',
'class': 'ScienceGranuleIngestionWorker'
}
process_definition_id = self.process_dispatcher.create_process_definition(
process_definition=ingestion_worker_definition)
self.process_definitions['ingestion_worker'] = process_definition_id
self.pids = []
self.exchange_points = []
self.exchange_names = []
#------------------------------------------------------------------------------------------------
# First launch the ingestors
#------------------------------------------------------------------------------------------------
self.exchange_space = 'science_granule_ingestion'
self.exchange_point = 'science_data'
config = DotDict()
config.process.datastore_name = 'datasets'
config.process.queue_name = self.exchange_space
self.exchange_names.append(self.exchange_space)
self.exchange_points.append(self.exchange_point)
pid = self.process_dispatcher.schedule_process(
self.process_definitions['ingestion_worker'], configuration=config)
log.debug("the ingestion worker process id: %s", pid)
self.pids.append(pid)
self.addCleanup(self.cleaning_up)
def cleaning_up(self):
for pid in self.pids:
log.debug("number of pids to be terminated: %s", len(self.pids))
try:
self.process_dispatcher.cancel_process(pid)
log.debug("Terminated the process: %s", pid)
except:
log.debug("could not terminate the process id: %s" % pid)
IngestionManagementIntTest.clean_subscriptions()
for xn in self.exchange_names:
xni = self.container.ex_manager.create_xn_queue(xn)
xni.delete()
for xp in self.exchange_points:
xpi = self.container.ex_manager.create_xp(xp)
xpi.delete()
def get_datastore(self, dataset_id):
dataset = self.dataset_management.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(
datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
@attr('EXT')
@attr('PREP')
def test_create_data_product(self):
#------------------------------------------------------------------------------------------------
# create a stream definition for the data from the ctd simulator
#------------------------------------------------------------------------------------------------
parameter_dictionary = self.dataset_management.read_parameter_dictionary_by_name(
'ctd_parsed_param_dict')
ctd_stream_def_id = self.pubsubcli.create_stream_definition(
name='Simulated CTD data',
parameter_dictionary_id=parameter_dictionary._id)
log.debug("Created stream def id %s" % ctd_stream_def_id)
#------------------------------------------------------------------------------------------------
# test creating a new data product w/o a stream definition
#------------------------------------------------------------------------------------------------
dp_obj = IonObject(RT.DataProduct,
name='DP1',
description='some new dp')
dp_obj.geospatial_bounds.geospatial_latitude_limit_north = 10.0
dp_obj.geospatial_bounds.geospatial_latitude_limit_south = -10.0
dp_obj.geospatial_bounds.geospatial_longitude_limit_east = 10.0
dp_obj.geospatial_bounds.geospatial_longitude_limit_west = -10.0
dp_obj.ooi_product_name = "PRODNAME"
#------------------------------------------------------------------------------------------------
# Create a set of ParameterContext objects to define the parameters in the coverage, add each to the ParameterDictionary
#------------------------------------------------------------------------------------------------
dp_id = self.dpsc_cli.create_data_product(
data_product=dp_obj, stream_definition_id=ctd_stream_def_id)
# Assert that the data product has an associated stream at this stage
stream_ids, _ = self.rrclient.find_objects(dp_id, PRED.hasStream,
RT.Stream, True)
self.assertNotEquals(len(stream_ids), 0)
# Assert that the data product has an associated stream def at this stage
stream_ids, _ = self.rrclient.find_objects(dp_id,
PRED.hasStreamDefinition,
RT.StreamDefinition, True)
self.assertNotEquals(len(stream_ids), 0)
self.dpsc_cli.activate_data_product_persistence(dp_id)
dp_obj = self.dpsc_cli.read_data_product(dp_id)
self.assertIsNotNone(dp_obj)
self.assertEquals(dp_obj.geospatial_point_center.lat, 0.0)
log.debug('Created data product %s', dp_obj)
#------------------------------------------------------------------------------------------------
# test creating a new data product with a stream definition
#------------------------------------------------------------------------------------------------
log.debug('Creating new data product with a stream definition')
dp_obj = IonObject(RT.DataProduct,
name='DP2',
description='some new dp')
dp_id2 = self.dpsc_cli.create_data_product(dp_obj, ctd_stream_def_id)
self.dpsc_cli.activate_data_product_persistence(dp_id2)
log.debug('new dp_id = %s' % dp_id2)
#------------------------------------------------------------------------------------------------
#make sure data product is associated with stream def
#------------------------------------------------------------------------------------------------
streamdefs = []
streams, _ = self.rrclient.find_objects(dp_id2, PRED.hasStream,
RT.Stream, True)
for s in streams:
log.debug("Checking stream %s" % s)
sdefs, _ = self.rrclient.find_objects(s, PRED.hasStreamDefinition,
RT.StreamDefinition, True)
for sd in sdefs:
log.debug("Checking streamdef %s" % sd)
streamdefs.append(sd)
self.assertIn(ctd_stream_def_id, streamdefs)
group_names = self.dpsc_cli.get_data_product_group_list()
self.assertIn("PRODNAME", group_names)
# test reading a non-existent data product
log.debug('reading non-existent data product')
with self.assertRaises(NotFound):
dp_obj = self.dpsc_cli.read_data_product('some_fake_id')
# update a data product (tests read also)
log.debug('Updating data product')
# first get the existing dp object
dp_obj = self.dpsc_cli.read_data_product(dp_id)
# now tweak the object
dp_obj.description = 'the very first dp'
dp_obj.geospatial_bounds.geospatial_latitude_limit_north = 20.0
dp_obj.geospatial_bounds.geospatial_latitude_limit_south = -20.0
dp_obj.geospatial_bounds.geospatial_longitude_limit_east = 20.0
dp_obj.geospatial_bounds.geospatial_longitude_limit_west = -20.0
# now write the dp back to the registry
update_result = self.dpsc_cli.update_data_product(dp_obj)
# now get the dp back to see if it was updated
dp_obj = self.dpsc_cli.read_data_product(dp_id)
self.assertEquals(dp_obj.description, 'the very first dp')
self.assertEquals(dp_obj.geospatial_point_center.lat, 0.0)
log.debug('Updated data product %s', dp_obj)
#test extension
extended_product = self.dpsc_cli.get_data_product_extension(dp_id)
self.assertEqual(dp_id, extended_product._id)
self.assertEqual(
ComputedValueAvailability.PROVIDED,
extended_product.computed.product_download_size_estimated.status)
self.assertEqual(
0, extended_product.computed.product_download_size_estimated.value)
self.assertEqual(ComputedValueAvailability.PROVIDED,
extended_product.computed.parameters.status)
#log.debug("test_create_data_product: parameters %s" % extended_product.computed.parameters.value)
def ion_object_encoder(obj):
return obj.__dict__
#test prepare for create
data_product_data = self.dpsc_cli.prepare_data_product_support()
#print simplejson.dumps(data_product_data, default=ion_object_encoder, indent= 2)
self.assertEqual(data_product_data._id, "")
self.assertEqual(data_product_data.type_, OT.DataProductPrepareSupport)
self.assertEqual(
len(data_product_data.associations['StreamDefinition'].resources),
2)
self.assertEqual(
len(data_product_data.associations['Dataset'].resources), 0)
self.assertEqual(
len(data_product_data.associations['StreamDefinition'].
associated_resources), 0)
self.assertEqual(
len(data_product_data.associations['Dataset'].associated_resources
), 0)
#test prepare for update
data_product_data = self.dpsc_cli.prepare_data_product_support(dp_id)
#print simplejson.dumps(data_product_data, default=ion_object_encoder, indent= 2)
self.assertEqual(data_product_data._id, dp_id)
self.assertEqual(data_product_data.type_, OT.DataProductPrepareSupport)
self.assertEqual(
len(data_product_data.associations['StreamDefinition'].resources),
2)
self.assertEqual(
len(data_product_data.associations['Dataset'].resources), 1)
self.assertEqual(
len(data_product_data.associations['StreamDefinition'].
associated_resources), 1)
self.assertEqual(
data_product_data.associations['StreamDefinition'].
associated_resources[0].s, dp_id)
self.assertEqual(
len(data_product_data.associations['Dataset'].associated_resources
), 1)
self.assertEqual(
data_product_data.associations['Dataset'].associated_resources[0].
s, dp_id)
# now 'delete' the data product
log.debug("deleting data product: %s" % dp_id)
self.dpsc_cli.delete_data_product(dp_id)
# Assert that there are no associated streams leftover after deleting the data product
stream_ids, assoc_ids = self.rrclient.find_objects(
dp_id, PRED.hasStream, RT.Stream, True)
self.assertEquals(len(stream_ids), 0)
self.assertEquals(len(assoc_ids), 0)
self.dpsc_cli.force_delete_data_product(dp_id)
# now try to get the deleted dp object
with self.assertRaises(NotFound):
dp_obj = self.dpsc_cli.read_data_product(dp_id)
# Get the events corresponding to the data product
ret = self.unsc.get_recent_events(resource_id=dp_id)
events = ret.value
for event in events:
log.debug("event time: %s" % event.ts_created)
self.assertTrue(len(events) > 0)
def test_data_product_stream_def(self):
pdict_id = self.dataset_management.read_parameter_dictionary_by_name(
'ctd_parsed_param_dict', id_only=True)
ctd_stream_def_id = self.pubsubcli.create_stream_definition(
name='Simulated CTD data', parameter_dictionary_id=pdict_id)
dp_obj = IonObject(RT.DataProduct,
name='DP1',
description='some new dp')
dp_id = self.dpsc_cli.create_data_product(
data_product=dp_obj, stream_definition_id=ctd_stream_def_id)
stream_def_id = self.dpsc_cli.get_data_product_stream_definition(dp_id)
self.assertEquals(ctd_stream_def_id, stream_def_id)
def test_derived_data_product(self):
pdict_id = self.dataset_management.read_parameter_dictionary_by_name(
'ctd_parsed_param_dict', id_only=True)
ctd_stream_def_id = self.pubsubcli.create_stream_definition(
name='ctd parsed', parameter_dictionary_id=pdict_id)
self.addCleanup(self.pubsubcli.delete_stream_definition,
ctd_stream_def_id)
dp = DataProduct(name='Instrument DP')
dp_id = self.dpsc_cli.create_data_product(
dp, stream_definition_id=ctd_stream_def_id)
self.addCleanup(self.dpsc_cli.force_delete_data_product, dp_id)
self.dpsc_cli.activate_data_product_persistence(dp_id)
self.addCleanup(self.dpsc_cli.suspend_data_product_persistence, dp_id)
dataset_ids, _ = self.rrclient.find_objects(subject=dp_id,
predicate=PRED.hasDataset,
id_only=True)
if not dataset_ids:
raise NotFound("Data Product %s dataset does not exist" %
str(dp_id))
dataset_id = dataset_ids[0]
# Make the derived data product
simple_stream_def_id = self.pubsubcli.create_stream_definition(
name='TEMPWAT stream def',
parameter_dictionary_id=pdict_id,
available_fields=['time', 'temp'])
tempwat_dp = DataProduct(name='TEMPWAT',
category=DataProductTypeEnum.DERIVED)
tempwat_dp_id = self.dpsc_cli.create_data_product(
tempwat_dp,
stream_definition_id=simple_stream_def_id,
parent_data_product_id=dp_id)
self.addCleanup(self.dpsc_cli.delete_data_product, tempwat_dp_id)
# Check that the streams associated with the data product are persisted with
stream_ids, _ = self.rrclient.find_objects(dp_id, PRED.hasStream,
RT.Stream, True)
for stream_id in stream_ids:
self.assertTrue(self.ingestclient.is_persisted(stream_id))
stream_id = stream_ids[0]
route = self.pubsubcli.read_stream_route(stream_id=stream_id)
rdt = RecordDictionaryTool(stream_definition_id=ctd_stream_def_id)
rdt['time'] = np.arange(20)
rdt['temp'] = np.arange(20)
rdt['pressure'] = np.arange(20)
publisher = StandaloneStreamPublisher(stream_id, route)
dataset_modified = Event()
def cb(*args, **kwargs):
dataset_modified.set()
es = EventSubscriber(event_type=OT.DatasetModified,
callback=cb,
origin=dataset_id,
auto_delete=True)
es.start()
self.addCleanup(es.stop)
publisher.publish(rdt.to_granule())
self.assertTrue(dataset_modified.wait(30))
tempwat_dataset_ids, _ = self.rrclient.find_objects(tempwat_dp_id,
PRED.hasDataset,
id_only=True)
tempwat_dataset_id = tempwat_dataset_ids[0]
granule = self.data_retriever.retrieve(
tempwat_dataset_id, delivery_format=simple_stream_def_id)
rdt = RecordDictionaryTool.load_from_granule(granule)
np.testing.assert_array_equal(rdt['time'], np.arange(20))
self.assertEquals(set(rdt.fields), set(['time', 'temp']))
def test_activate_suspend_data_product(self):
#------------------------------------------------------------------------------------------------
# create a stream definition for the data from the ctd simulator
#------------------------------------------------------------------------------------------------
pdict_id = self.dataset_management.read_parameter_dictionary_by_name(
'ctd_parsed_param_dict', id_only=True)
ctd_stream_def_id = self.pubsubcli.create_stream_definition(
name='Simulated CTD data', parameter_dictionary_id=pdict_id)
log.debug("Created stream def id %s" % ctd_stream_def_id)
#------------------------------------------------------------------------------------------------
# test creating a new data product w/o a stream definition
#------------------------------------------------------------------------------------------------
# Construct temporal and spatial Coordinate Reference System objects
dp_obj = IonObject(RT.DataProduct,
name='DP1',
description='some new dp')
log.debug("Created an IonObject for a data product: %s" % dp_obj)
#------------------------------------------------------------------------------------------------
# Create a set of ParameterContext objects to define the parameters in the coverage, add each to the ParameterDictionary
#------------------------------------------------------------------------------------------------
dp_id = self.dpsc_cli.create_data_product(
data_product=dp_obj, stream_definition_id=ctd_stream_def_id)
#------------------------------------------------------------------------------------------------
# Subscribe to persist events
#------------------------------------------------------------------------------------------------
queue = gevent.queue.Queue()
def info_event_received(message, headers):
queue.put(message)
es = EventSubscriber(event_type=OT.InformationContentStatusEvent,
callback=info_event_received,
origin=dp_id,
auto_delete=True)
es.start()
self.addCleanup(es.stop)
#------------------------------------------------------------------------------------------------
# test activate and suspend data product persistence
#------------------------------------------------------------------------------------------------
self.dpsc_cli.activate_data_product_persistence(dp_id)
dp_obj = self.dpsc_cli.read_data_product(dp_id)
self.assertIsNotNone(dp_obj)
dataset_ids, _ = self.rrclient.find_objects(subject=dp_id,
predicate=PRED.hasDataset,
id_only=True)
if not dataset_ids:
raise NotFound("Data Product %s dataset does not exist" %
str(dp_id))
dataset_id = dataset_ids[0]
# Check that the streams associated with the data product are persisted with
stream_ids, _ = self.rrclient.find_objects(dp_id, PRED.hasStream,
RT.Stream, True)
for stream_id in stream_ids:
self.assertTrue(self.ingestclient.is_persisted(stream_id))
stream_id = stream_ids[0]
route = self.pubsubcli.read_stream_route(stream_id=stream_id)
rdt = RecordDictionaryTool(stream_definition_id=ctd_stream_def_id)
rdt['time'] = np.arange(20)
rdt['temp'] = np.arange(20)
publisher = StandaloneStreamPublisher(stream_id, route)
dataset_modified = Event()
def cb(*args, **kwargs):
dataset_modified.set()
es = EventSubscriber(event_type=OT.DatasetModified,
callback=cb,
origin=dataset_id,
auto_delete=True)
es.start()
self.addCleanup(es.stop)
publisher.publish(rdt.to_granule())
self.assertTrue(dataset_modified.wait(30))
#--------------------------------------------------------------------------------
# Now get the data in one chunk using an RPC Call to start_retreive
#--------------------------------------------------------------------------------
replay_data = self.data_retriever.retrieve(dataset_ids[0])
self.assertIsInstance(replay_data, Granule)
log.debug(
"The data retriever was able to replay the dataset that was attached to the data product "
"we wanted to be persisted. Therefore the data product was indeed persisted with "
"otherwise we could not have retrieved its dataset using the data retriever. Therefore "
"this demonstration shows that L4-CI-SA-RQ-267 is satisfied: 'Data product management shall persist data products'"
)
data_product_object = self.rrclient.read(dp_id)
self.assertEquals(data_product_object.name, 'DP1')
self.assertEquals(data_product_object.description, 'some new dp')
log.debug(
"Towards L4-CI-SA-RQ-308: 'Data product management shall persist data product metadata'. "
" Attributes in create for the data product obj, name= '%s', description='%s', match those of object from the "
"resource registry, name='%s', desc='%s'" %
(dp_obj.name, dp_obj.description, data_product_object.name,
data_product_object.description))
#------------------------------------------------------------------------------------------------
# test suspend data product persistence
#------------------------------------------------------------------------------------------------
self.dpsc_cli.suspend_data_product_persistence(dp_id)
dataset_modified.clear()
rdt['time'] = np.arange(20, 40)
publisher.publish(rdt.to_granule())
self.assertFalse(dataset_modified.wait(2))
self.dpsc_cli.activate_data_product_persistence(dp_id)
dataset_modified.clear()
publisher.publish(rdt.to_granule())
self.assertTrue(dataset_modified.wait(30))
granule = self.data_retriever.retrieve(dataset_id)
rdt = RecordDictionaryTool.load_from_granule(granule)
np.testing.assert_array_almost_equal(rdt['time'], np.arange(40))
dataset_ids, _ = self.rrclient.find_objects(dp_id,
PRED.hasDataset,
id_only=True)
self.assertEquals(len(dataset_ids), 1)
self.dpsc_cli.suspend_data_product_persistence(dp_id)
self.dpsc_cli.force_delete_data_product(dp_id)
# now try to get the deleted dp object
with self.assertRaises(NotFound):
dp_obj = self.rrclient.read(dp_id)
info_event_counter = 0
runtime = 0
starttime = time.time()
caught_events = []
#check that the four InfoStatusEvents were received
while info_event_counter < 4 and runtime < 60:
a = queue.get(timeout=60)
caught_events.append(a)
info_event_counter += 1
runtime = time.time() - starttime
self.assertEquals(info_event_counter, 4)
class TestCoverageModelRecoveryInt(IonIntegrationTestCase):
def setUp(self):
# Start container
#print 'instantiating container'
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.dpsc_cli = DataProductManagementServiceClient()
self.rrclient = ResourceRegistryServiceClient()
self.damsclient = DataAcquisitionManagementServiceClient()
self.pubsubcli = PubsubManagementServiceClient()
self.ingestclient = IngestionManagementServiceClient()
self.process_dispatcher = ProcessDispatcherServiceClient()
self.dataset_management = DatasetManagementServiceClient()
self.unsc = UserNotificationServiceClient()
self.data_retriever = DataRetrieverServiceClient()
#------------------------------------------
# Create the environment
#------------------------------------------
datastore_name = CACHE_DATASTORE_NAME
self.db = self.container.datastore_manager.get_datastore(datastore_name)
self.stream_def_id = self.pubsubcli.create_stream_definition(name='SBE37_CDM')
self.process_definitions = {}
ingestion_worker_definition = ProcessDefinition(name='ingestion worker')
ingestion_worker_definition.executable = {
'module':'ion.processes.data.ingestion.science_granule_ingestion_worker',
'class' :'ScienceGranuleIngestionWorker'
}
process_definition_id = self.process_dispatcher.create_process_definition(process_definition=ingestion_worker_definition)
self.process_definitions['ingestion_worker'] = process_definition_id
self.pids = []
self.exchange_points = []
self.exchange_names = []
#------------------------------------------------------------------------------------------------
# First launch the ingestors
#------------------------------------------------------------------------------------------------
self.exchange_space = 'science_granule_ingestion'
self.exchange_point = 'science_data'
config = DotDict()
config.process.datastore_name = 'datasets'
config.process.queue_name = self.exchange_space
self.exchange_names.append(self.exchange_space)
self.exchange_points.append(self.exchange_point)
pid = self.process_dispatcher.schedule_process(self.process_definitions['ingestion_worker'],configuration=config)
log.debug("the ingestion worker process id: %s", pid)
self.pids.append(pid)
def get_datastore(self, dataset_id):
dataset = self.dataset_management.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def load_data_product(self):
dset_i = 0
dataset_management = DatasetManagementServiceClient()
pubsub_management = PubsubManagementServiceClient()
data_product_management = DataProductManagementServiceClient()
resource_registry = self.container.instance.resource_registry
tdom, sdom = time_series_domain()
tdom = tdom.dump()
sdom = sdom.dump()
dp_obj = DataProduct(
name='instrument_data_product_%i' % dset_i,
description='ctd stream test',
processing_level_code='Parsed_Canonical',
temporal_domain = tdom,
spatial_domain = sdom)
pdict_id = dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
stream_def_id = pubsub_management.create_stream_definition(name='parsed', parameter_dictionary_id=pdict_id)
self.addCleanup(pubsub_management.delete_stream_definition, stream_def_id)
data_product_id = data_product_management.create_data_product(data_product=dp_obj, stream_definition_id=stream_def_id)
self.addCleanup(data_product_management.delete_data_product, data_product_id)
data_product_management.activate_data_product_persistence(data_product_id)
self.addCleanup(data_product_management.suspend_data_product_persistence, data_product_id)
stream_ids, assocs = resource_registry.find_objects(subject=data_product_id, predicate='hasStream', id_only=True)
stream_id = stream_ids[0]
route = pubsub_management.read_stream_route(stream_id)
dataset_ids, assocs = resource_registry.find_objects(subject=data_product_id, predicate='hasDataset', id_only=True)
dataset_id = dataset_ids[0]
return data_product_id, stream_id, route, stream_def_id, dataset_id
def populate_dataset(self, dataset_id, hours):
import time
cov = DatasetManagementService._get_simplex_coverage(dataset_id=dataset_id, mode='w')
# rcov = vcov.reference_coverage
# cov = AbstractCoverage.load(rcov.persistence_dir, mode='a')
dt = hours * 3600
cov.insert_timesteps(dt)
now = time.time()
cov.set_parameter_values('time', np.arange(now - dt, now) + 2208988800)
cov.set_parameter_values('temp', np.sin(np.arange(dt) * 2 * np.pi / 60))
cov.set_parameter_values('lat', np.zeros(dt))
cov.set_parameter_values('lon', np.zeros(dt))
cov.close()
gevent.sleep(1)
@attr('LOCOINT')
@unittest.skip('Coverage metadata is now stored in Postgres. Recovery may no longer make sense.')
@unittest.skipIf(os.getenv('CEI_LAUNCH_TEST', False), 'Host requires file-system access to coverage files, CEI mode does not support.')
@unittest.skipIf(not_have_h5stat, 'h5stat is not accessible in current PATH')
@unittest.skipIf(not not_have_h5stat and not h5stat_correct_version, 'HDF is the incorrect version: %s' % version_str)
def test_coverage_recovery(self):
# Create the coverage
dp_id, stream_id, route, stream_def_id, dataset_id = self.load_data_product()
self.populate_dataset(dataset_id, 36)
dset = self.dataset_management.read_dataset(dataset_id)
dprod = self.dpsc_cli.read_data_product(dp_id)
cov = DatasetManagementService._get_simplex_coverage(dataset_id)
cov_pth = cov.persistence_dir
cov.close()
num_params = len(cov.list_parameters())
num_bricks = 8
total = num_params + num_bricks + 1
# Analyze the valid coverage
dr = CoverageDoctor(cov_pth, dprod, dset)
dr_result = dr.analyze()
# TODO: Turn these into meaningful Asserts
self.assertEqual(len(dr_result.get_brick_corruptions()), 0)
self.assertEqual(len(dr_result.get_brick_size_ratios()), num_bricks)
self.assertEqual(len(dr_result.get_corruptions()), 0)
self.assertEqual(len(dr_result.get_master_corruption()), 0)
self.assertEqual(len(dr_result.get_param_corruptions()), 0)
self.assertEqual(len(dr_result.get_param_size_ratios()), num_params)
self.assertEqual(len(dr_result.get_master_size_ratio()), 1)
self.assertEqual(len(dr_result.get_size_ratios()), total)
self.assertEqual(dr_result.master_status[1], 'NORMAL')
self.assertFalse(dr_result.is_corrupt)
self.assertEqual(dr_result.param_file_count, num_params)
self.assertEqual(dr_result.brick_file_count, num_bricks)
self.assertEqual(dr_result.total_file_count, total)
# Get original values (mock)
orig_cov = AbstractCoverage.load(cov_pth)
time_vals_orig = orig_cov.get_time_values()
orig_cov.close()
# Corrupt the Master File
fo = open(cov._persistence_layer.master_manager.file_path, "wb")
fo.write('Junk')
fo.close()
# Corrupt the lon Parameter file
fo = open(cov._persistence_layer.parameter_metadata['lon'].file_path, "wb")
fo.write('Junk')
fo.close()
corrupt_res = dr.analyze(reanalyze=True)
self.assertTrue(corrupt_res.is_corrupt)
# Repair the metadata files
dr.repair(reanalyze=True)
fixed_res = dr.analyze(reanalyze=True)
self.assertFalse(fixed_res.is_corrupt)
fixed_cov = AbstractCoverage.load(cov_pth)
self.assertIsInstance(fixed_cov, AbstractCoverage)
time_vals_fixed = fixed_cov.get_time_values()
fixed_cov.close()
self.assertTrue(np.array_equiv(time_vals_orig, time_vals_fixed))
class TestDriverEgg(IonIntegrationTestCase):
def setUp(self):
# Start container
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
# Now create client to DataProductManagementService
self.rrclient = ResourceRegistryServiceClient(node=self.container.node)
self.damsclient = DataAcquisitionManagementServiceClient(
node=self.container.node)
self.pubsubcli = PubsubManagementServiceClient(
node=self.container.node)
self.imsclient = InstrumentManagementServiceClient(
node=self.container.node)
self.dpclient = DataProductManagementServiceClient(
node=self.container.node)
self.datasetclient = DatasetManagementServiceClient(
node=self.container.node)
self.processdispatchclient = ProcessDispatcherServiceClient(
node=self.container.node)
self.dataprocessclient = DataProcessManagementServiceClient(
node=self.container.node)
self.dataproductclient = DataProductManagementServiceClient(
node=self.container.node)
self.dataretrieverclient = DataRetrieverServiceClient(
node=self.container.node)
self.dataset_management = DatasetManagementServiceClient()
#setup listerner vars
self._data_greenlets = []
self._no_samples = None
self._samples_received = []
self.event_publisher = EventPublisher()
def get_datastore(self, dataset_id):
dataset = self.datasetclient.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(
datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def get_streamConfigs(self):
raw_config = StreamConfiguration(
stream_name='raw', parameter_dictionary_name='ctd_raw_param_dict')
parsed_config = StreamConfiguration(
stream_name='parsed',
parameter_dictionary_name='ctd_parsed_param_dict')
return raw_config, parsed_config
##########################
#
# The following tests generate different agent configs and pass them to a common base test script
#
###########################
@unittest.skip(
"this test can't be run from coi services. it is missing dependencies")
def test_driverLaunchModuleNoURI(self):
raw_config, parsed_config = self.get_streamConfigs()
instAgent_obj = IonObject(
RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
driver_module="mi.instrument.seabird.sbe37smb.ooicore.driver",
driver_class="SBE37Driver",
stream_configurations=[raw_config, parsed_config])
self.base_activateInstrumentSample(instAgent_obj)
def test_driverLaunchModuleWithURI(self):
raw_config, parsed_config = self.get_streamConfigs()
instAgent_obj = IonObject(
RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
driver_module="mi.instrument.seabird.sbe37smb.ooicore.driver",
driver_class="SBE37Driver",
driver_uri=DRV_URI_GOOD,
stream_configurations=[raw_config, parsed_config])
self.base_activateInstrumentSample(instAgent_obj)
def test_driverLaunchNoModuleOnlyURI(self):
raw_config, parsed_config = self.get_streamConfigs()
instAgent_obj = IonObject(
RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
#driver_module="mi.instrument.seabird.sbe37smb.ooicore.driver",
#driver_class="SBE37Driver",
driver_uri=DRV_URI_GOOD,
stream_configurations=[raw_config, parsed_config])
self.base_activateInstrumentSample(instAgent_obj)
def test_driverLaunchBogusModuleWithURI(self):
raw_config, parsed_config = self.get_streamConfigs()
instAgent_obj = IonObject(
RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
driver_module="bogus",
driver_class="Bogus",
driver_uri=DRV_URI_GOOD,
stream_configurations=[raw_config, parsed_config])
self.base_activateInstrumentSample(instAgent_obj)
@unittest.skip(
"Launches an egg 'process' even though the egg download should produce error 404"
)
def test_driverLaunchNoModule404URI(self):
raw_config, parsed_config = self.get_streamConfigs()
instAgent_obj = IonObject(
RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
#driver_module="mi.instrument.seabird.sbe37smb.ooicore.driver",
#driver_class="SBE37Driver",
driver_uri=DRV_URI_404,
stream_configurations=[raw_config, parsed_config])
self.base_activateInstrumentSample(instAgent_obj, False)
def test_driverLaunchNoModuleBadEggURI(self):
raw_config, parsed_config = self.get_streamConfigs()
instAgent_obj = IonObject(
RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
#driver_module="mi.instrument.seabird.sbe37smb.ooicore.driver",
#driver_class="SBE37Driver",
driver_uri=DRV_URI_BAD,
stream_configurations=[raw_config, parsed_config])
self.base_activateInstrumentSample(instAgent_obj, True, False)
def base_activateInstrumentSample(self,
instAgent_obj,
expect_launch=True,
expect_command=True):
"""
This method runs a test of launching a driver with a given agent configuration
"""
# Create InstrumentModel
instModel_obj = IonObject(RT.InstrumentModel,
name='SBE37IMModel',
description="SBE37IMModel")
instModel_id = self.imsclient.create_instrument_model(instModel_obj)
print 'new InstrumentModel id = %s ' % instModel_id
# Create InstrumentAgent
instAgent_id = self.imsclient.create_instrument_agent(instAgent_obj)
print 'new InstrumentAgent id = %s' % instAgent_id
self.imsclient.assign_instrument_model_to_instrument_agent(
instModel_id, instAgent_id)
# Create InstrumentDevice
instDevice_obj = IonObject(RT.InstrumentDevice,
name='SBE37IMDevice',
description="SBE37IMDevice",
serial_number="12345")
instDevice_id = self.imsclient.create_instrument_device(
instrument_device=instDevice_obj)
self.imsclient.assign_instrument_model_to_instrument_device(
instModel_id, instDevice_id)
port_agent_config = {
'device_addr': CFG.device.sbe37.host,
'device_port': CFG.device.sbe37.port,
'process_type': PortAgentProcessType.UNIX,
'binary_path': "port_agent",
'port_agent_addr': 'localhost',
'command_port': CFG.device.sbe37.port_agent_cmd_port,
'data_port': CFG.device.sbe37.port_agent_data_port,
'log_level': 5,
'type': PortAgentType.ETHERNET
}
instAgentInstance_obj = IonObject(RT.InstrumentAgentInstance,
name='SBE37IMAgentInstance',
description="SBE37IMAgentInstance",
port_agent_config=port_agent_config)
instAgentInstance_id = self.imsclient.create_instrument_agent_instance(
instAgentInstance_obj, instAgent_id, instDevice_id)
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
parsed_pdict_id = self.dataset_management.read_parameter_dictionary_by_name(
'ctd_parsed_param_dict', id_only=True)
raw_pdict_id = self.dataset_management.read_parameter_dictionary_by_name(
'ctd_raw_param_dict', id_only=True)
parsed_stream_def_id = self.pubsubcli.create_stream_definition(
name='parsed', parameter_dictionary_id=parsed_pdict_id)
raw_stream_def_id = self.pubsubcli.create_stream_definition(
name='raw', parameter_dictionary_id=raw_pdict_id)
#-------------------------------
# Create Raw and Parsed Data Products for the device
#-------------------------------
dp_obj = IonObject(RT.DataProduct,
name='the parsed data',
description='ctd stream test',
temporal_domain=tdom,
spatial_domain=sdom)
data_product_id1 = self.dpclient.create_data_product(
data_product=dp_obj, stream_definition_id=parsed_stream_def_id)
print 'new dp_id = %s' % data_product_id1
self.dpclient.activate_data_product_persistence(
data_product_id=data_product_id1)
self.damsclient.assign_data_product(input_resource_id=instDevice_id,
data_product_id=data_product_id1)
# Retrieve the id of the OUTPUT stream from the out Data Product
stream_ids, _ = self.rrclient.find_objects(data_product_id1,
PRED.hasStream, None, True)
print 'Data product streams1 = %s' % stream_ids
# Retrieve the id of the OUTPUT stream from the out Data Product
dataset_ids, _ = self.rrclient.find_objects(data_product_id1,
PRED.hasDataset,
RT.Dataset, True)
print 'Data set for data_product_id1 = %s' % dataset_ids[0]
self.parsed_dataset = dataset_ids[0]
#create the datastore at the beginning of each int test that persists data
self.get_datastore(self.parsed_dataset)
dp_obj = IonObject(RT.DataProduct,
name='the raw data',
description='raw stream test',
temporal_domain=tdom,
spatial_domain=sdom)
data_product_id2 = self.dpclient.create_data_product(
data_product=dp_obj, stream_definition_id=raw_stream_def_id)
print 'new dp_id = %s' % str(data_product_id2)
self.damsclient.assign_data_product(input_resource_id=instDevice_id,
data_product_id=data_product_id2)
self.dpclient.activate_data_product_persistence(
data_product_id=data_product_id2)
# Retrieve the id of the OUTPUT stream from the out Data Product
stream_ids, _ = self.rrclient.find_objects(data_product_id2,
PRED.hasStream, None, True)
print 'Data product streams2 = %s' % str(stream_ids)
# Retrieve the id of the OUTPUT stream from the out Data Product
dataset_ids, _ = self.rrclient.find_objects(data_product_id2,
PRED.hasDataset,
RT.Dataset, True)
print 'Data set for data_product_id2 = %s' % dataset_ids[0]
self.raw_dataset = dataset_ids[0]
# add start/stop for instrument agent
gevent.joinall([
gevent.spawn(
lambda: self.imsclient.start_instrument_agent_instance(
instrument_agent_instance_id=instAgentInstance_id))
])
self.addCleanup(self.imsclient.stop_instrument_agent_instance,
instrument_agent_instance_id=instAgentInstance_id)
#wait for start
inst_agent_instance_obj = self.imsclient.read_instrument_agent_instance(
instAgentInstance_id)
agent_process_id = ResourceAgentClient._get_agent_process_id(
instDevice_id)
print "Agent process id is '%s'" % str(agent_process_id)
self.assertTrue(agent_process_id)
gate = ProcessStateGate(self.processdispatchclient.read_process,
agent_process_id, ProcessStateEnum.RUNNING)
if not expect_launch:
self.assertFalse(
gate. await (30),
"The instance (%s) of bogus instrument agent spawned in 30 seconds ?!?"
% agent_process_id)
return
self.assertTrue(
gate. await (30),
"The instrument agent instance (%s) did not spawn in 30 seconds" %
agent_process_id)
print "Instrument Agent Instance successfully triggered ProcessStateGate as RUNNING"
#print 'Instrument agent instance obj: = %s' % str(inst_agent_instance_obj)
# Start a resource agent client to talk with the instrument agent.
self._ia_client = ResourceAgentClient(instDevice_id,
to_name=agent_process_id,
process=FakeProcess())
print "ResourceAgentClient created: %s" % str(self._ia_client)
print "Sending command=ResourceAgentEvent.INITIALIZE"
cmd = AgentCommand(command=ResourceAgentEvent.INITIALIZE)
if not expect_command:
self.assertRaises(ServerError, self._ia_client.execute_agent, cmd)
return
retval = self._ia_client.execute_agent(cmd)
print "Result of INITIALIZE: %s" % str(retval)
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.INACTIVE)
cmd = AgentCommand(command=ResourceAgentEvent.GO_ACTIVE)
reply = self._ia_client.execute_agent(cmd)
self.assertTrue(reply.status == 0)
cmd = AgentCommand(command=ResourceAgentEvent.GET_RESOURCE_STATE)
retval = self._ia_client.execute_agent(cmd)
state = retval.result
self.assertTrue(state, 'DRIVER_STATE_COMMAND')
cmd = AgentCommand(command=ResourceAgentEvent.RUN)
reply = self._ia_client.execute_agent(cmd)
self.assertTrue(reply.status == 0)
cmd = AgentCommand(command=SBE37ProtocolEvent.START_AUTOSAMPLE)
retval = self._ia_client.execute_resource(cmd)
# This gevent sleep is there to test the autosample time, which will show something different from default
# only if the instrument runs for over a minute
gevent.sleep(90)
extended_instrument = self.imsclient.get_instrument_device_extension(
instrument_device_id=instDevice_id)
self.assertIsInstance(extended_instrument.computed.uptime,
ComputedStringValue)
autosample_string = extended_instrument.computed.uptime.value
autosampling_time = int(autosample_string.split()[4])
self.assertTrue(autosampling_time > 0)
cmd = AgentCommand(command=SBE37ProtocolEvent.STOP_AUTOSAMPLE)
retval = self._ia_client.execute_resource(cmd)
print "Sending command=ResourceAgentEvent.RESET"
cmd = AgentCommand(command=ResourceAgentEvent.RESET)
reply = self._ia_client.execute_agent(cmd)
print "Result of RESET: %s" % str(reply)
class TestActivateInstrumentIntegration(IonIntegrationTestCase):
def setUp(self):
# Start container
super(TestActivateInstrumentIntegration, self).setUp()
config = DotDict()
config.bootstrap.use_es = True
self._start_container()
self.addCleanup(TestActivateInstrumentIntegration.es_cleanup)
self.container.start_rel_from_url('res/deploy/r2deploy.yml', config)
# Now create client to DataProductManagementService
self.rrclient = ResourceRegistryServiceClient(node=self.container.node)
self.damsclient = DataAcquisitionManagementServiceClient(
node=self.container.node)
self.pubsubcli = PubsubManagementServiceClient(
node=self.container.node)
self.imsclient = InstrumentManagementServiceClient(
node=self.container.node)
self.dpclient = DataProductManagementServiceClient(
node=self.container.node)
self.datasetclient = DatasetManagementServiceClient(
node=self.container.node)
self.processdispatchclient = ProcessDispatcherServiceClient(
node=self.container.node)
self.dataprocessclient = DataProcessManagementServiceClient(
node=self.container.node)
self.dataproductclient = DataProductManagementServiceClient(
node=self.container.node)
self.dataretrieverclient = DataRetrieverServiceClient(
node=self.container.node)
self.dataset_management = DatasetManagementServiceClient()
self.usernotificationclient = UserNotificationServiceClient()
#setup listerner vars
self._data_greenlets = []
self._no_samples = None
self._samples_received = []
self.event_publisher = EventPublisher()
@staticmethod
def es_cleanup():
es_host = CFG.get_safe('server.elasticsearch.host', 'localhost')
es_port = CFG.get_safe('server.elasticsearch.port', '9200')
es = ep.ElasticSearch(host=es_host, port=es_port, timeout=10)
indexes = STD_INDEXES.keys()
indexes.append('%s_resources_index' % get_sys_name().lower())
indexes.append('%s_events_index' % get_sys_name().lower())
for index in indexes:
IndexManagementService._es_call(es.river_couchdb_delete, index)
IndexManagementService._es_call(es.index_delete, index)
def create_logger(self, name, stream_id=''):
# logger process
producer_definition = ProcessDefinition(name=name + '_logger')
producer_definition.executable = {
'module': 'ion.processes.data.stream_granule_logger',
'class': 'StreamGranuleLogger'
}
logger_procdef_id = self.processdispatchclient.create_process_definition(
process_definition=producer_definition)
configuration = {
'process': {
'stream_id': stream_id,
}
}
pid = self.processdispatchclient.schedule_process(
process_definition_id=logger_procdef_id,
configuration=configuration)
return pid
def _create_notification(self,
user_name='',
instrument_id='',
product_id=''):
#--------------------------------------------------------------------------------------
# Make notification request objects
#--------------------------------------------------------------------------------------
notification_request_1 = NotificationRequest(
name='notification_1',
origin=instrument_id,
origin_type="instrument",
event_type='ResourceLifecycleEvent')
notification_request_2 = NotificationRequest(
name='notification_2',
origin=product_id,
origin_type="data product",
event_type='DetectionEvent')
#--------------------------------------------------------------------------------------
# Create a user and get the user_id
#--------------------------------------------------------------------------------------
user = UserInfo()
user.name = user_name
user.contact.email = '*****@*****.**' % user_name
user_id, _ = self.rrclient.create(user)
#--------------------------------------------------------------------------------------
# Create notification
#--------------------------------------------------------------------------------------
self.usernotificationclient.create_notification(
notification=notification_request_1, user_id=user_id)
self.usernotificationclient.create_notification(
notification=notification_request_2, user_id=user_id)
log.debug(
"test_activateInstrumentSample: create_user_notifications user_id %s",
str(user_id))
return user_id
def get_datastore(self, dataset_id):
dataset = self.datasetclient.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(
datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def _check_computed_attributes_of_extended_instrument(
self, expected_instrument_device_id='', extended_instrument=None):
# Verify that computed attributes exist for the extended instrument
self.assertIsInstance(
extended_instrument.computed.last_data_received_datetime,
ComputedFloatValue)
self.assertIsInstance(extended_instrument.computed.uptime,
ComputedStringValue)
self.assertIsInstance(
extended_instrument.computed.power_status_roll_up,
ComputedIntValue)
self.assertIsInstance(
extended_instrument.computed.communications_status_roll_up,
ComputedIntValue)
self.assertIsInstance(extended_instrument.computed.data_status_roll_up,
ComputedIntValue)
self.assertIsInstance(
extended_instrument.computed.location_status_roll_up,
ComputedIntValue)
# the following assert will not work without elasticsearch.
#self.assertEqual( 1, len(extended_instrument.computed.user_notification_requests.value) )
# Verify the computed attribute for user notification requests
self.assertEqual(
1,
len(extended_instrument.computed.user_notification_requests.value))
notifications = extended_instrument.computed.user_notification_requests.value
notification = notifications[0]
self.assertEqual(expected_instrument_device_id, notification.origin)
self.assertEqual("instrument", notification.origin_type)
self.assertEqual('ResourceLifecycleEvent', notification.event_type)
def _check_computed_attributes_of_extended_product(
self, expected_data_product_id='', extended_data_product=None):
self.assertEqual(expected_data_product_id, extended_data_product._id)
log.debug("extended_data_product.computed: %s",
extended_data_product.computed)
# Verify that computed attributes exist for the extended instrument
self.assertIsInstance(
extended_data_product.computed.product_download_size_estimated,
ComputedFloatValue)
self.assertIsInstance(
extended_data_product.computed.number_active_subscriptions,
ComputedIntValue)
self.assertIsInstance(extended_data_product.computed.data_url,
ComputedStringValue)
self.assertIsInstance(extended_data_product.computed.stored_data_size,
ComputedIntValue)
self.assertIsInstance(extended_data_product.computed.recent_granules,
ComputedDictValue)
self.assertIsInstance(extended_data_product.computed.parameters,
ComputedListValue)
self.assertIsInstance(extended_data_product.computed.recent_events,
ComputedEventListValue)
self.assertIsInstance(extended_data_product.computed.provenance,
ComputedDictValue)
self.assertIsInstance(
extended_data_product.computed.user_notification_requests,
ComputedListValue)
self.assertIsInstance(
extended_data_product.computed.active_user_subscriptions,
ComputedListValue)
self.assertIsInstance(
extended_data_product.computed.past_user_subscriptions,
ComputedListValue)
self.assertIsInstance(extended_data_product.computed.last_granule,
ComputedDictValue)
self.assertIsInstance(extended_data_product.computed.is_persisted,
ComputedIntValue)
self.assertIsInstance(
extended_data_product.computed.data_contents_updated,
ComputedStringValue)
self.assertIsInstance(extended_data_product.computed.data_datetime,
ComputedListValue)
# exact text here keeps changing to fit UI capabilities. keep assertion general...
self.assertIn(
'ok',
extended_data_product.computed.last_granule.value['quality_flag'])
self.assertEqual(
2, len(extended_data_product.computed.data_datetime.value))
notifications = extended_data_product.computed.user_notification_requests.value
notification = notifications[0]
self.assertEqual(expected_data_product_id, notification.origin)
self.assertEqual("data product", notification.origin_type)
self.assertEqual('DetectionEvent', notification.event_type)
@attr('LOCOINT')
#@unittest.skip('refactoring')
@unittest.skipIf(not use_es, 'No ElasticSearch')
@unittest.skipIf(os.getenv('CEI_LAUNCH_TEST', False),
'Skip test while in CEI LAUNCH mode')
@patch.dict(CFG, {'endpoint': {'receive': {'timeout': 90}}})
def test_activateInstrumentSample(self):
self.loggerpids = []
# Create InstrumentModel
instModel_obj = IonObject(RT.InstrumentModel,
name='SBE37IMModel',
description="SBE37IMModel")
instModel_id = self.imsclient.create_instrument_model(instModel_obj)
log.debug('new InstrumentModel id = %s ', instModel_id)
raw_config = StreamConfiguration(stream_name='raw',
parameter_dictionary_name='raw')
parsed_config = StreamConfiguration(
stream_name='parsed',
parameter_dictionary_name='ctd_parsed_param_dict')
# Create InstrumentAgent
instAgent_obj = IonObject(
RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
driver_uri=DRV_URI_GOOD,
stream_configurations=[raw_config, parsed_config])
instAgent_id = self.imsclient.create_instrument_agent(instAgent_obj)
log.debug('new InstrumentAgent id = %s', instAgent_id)
self.imsclient.assign_instrument_model_to_instrument_agent(
instModel_id, instAgent_id)
# Create InstrumentDevice
log.debug(
'test_activateInstrumentSample: Create instrument resource to represent the SBE37 (SA Req: L4-CI-SA-RQ-241) '
)
instDevice_obj = IonObject(RT.InstrumentDevice,
name='SBE37IMDevice',
description="SBE37IMDevice",
serial_number="12345")
instDevice_id = self.imsclient.create_instrument_device(
instrument_device=instDevice_obj)
self.imsclient.assign_instrument_model_to_instrument_device(
instModel_id, instDevice_id)
log.debug(
"test_activateInstrumentSample: new InstrumentDevice id = %s (SA Req: L4-CI-SA-RQ-241) ",
instDevice_id)
port_agent_config = {
'device_addr': CFG.device.sbe37.host,
'device_port': CFG.device.sbe37.port,
'process_type': PortAgentProcessType.UNIX,
'binary_path': "port_agent",
'port_agent_addr': 'localhost',
'command_port': CFG.device.sbe37.port_agent_cmd_port,
'data_port': CFG.device.sbe37.port_agent_data_port,
'log_level': 5,
'type': PortAgentType.ETHERNET
}
instAgentInstance_obj = IonObject(RT.InstrumentAgentInstance,
name='SBE37IMAgentInstance',
description="SBE37IMAgentInstance",
port_agent_config=port_agent_config,
alerts=[])
instAgentInstance_id = self.imsclient.create_instrument_agent_instance(
instAgentInstance_obj, instAgent_id, instDevice_id)
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
parsed_pdict_id = self.dataset_management.read_parameter_dictionary_by_name(
'ctd_parsed_param_dict', id_only=True)
parsed_stream_def_id = self.pubsubcli.create_stream_definition(
name='parsed', parameter_dictionary_id=parsed_pdict_id)
raw_pdict_id = self.dataset_management.read_parameter_dictionary_by_name(
'raw', id_only=True)
raw_stream_def_id = self.pubsubcli.create_stream_definition(
name='raw', parameter_dictionary_id=raw_pdict_id)
#-------------------------------
# Create Raw and Parsed Data Products for the device
#-------------------------------
dp_obj = IonObject(RT.DataProduct,
name='the parsed data',
description='ctd stream test',
temporal_domain=tdom,
spatial_domain=sdom)
data_product_id1 = self.dpclient.create_data_product(
data_product=dp_obj, stream_definition_id=parsed_stream_def_id)
log.debug('new dp_id = %s', data_product_id1)
self.dpclient.activate_data_product_persistence(
data_product_id=data_product_id1)
self.damsclient.assign_data_product(input_resource_id=instDevice_id,
data_product_id=data_product_id1)
# Retrieve the id of the OUTPUT stream from the out Data Product
stream_ids, _ = self.rrclient.find_objects(data_product_id1,
PRED.hasStream, None, True)
log.debug('Data product streams1 = %s', stream_ids)
# Retrieve the id of the OUTPUT stream from the out Data Product
dataset_ids, _ = self.rrclient.find_objects(data_product_id1,
PRED.hasDataset,
RT.Dataset, True)
log.debug('Data set for data_product_id1 = %s', dataset_ids[0])
self.parsed_dataset = dataset_ids[0]
pid = self.create_logger('ctd_parsed', stream_ids[0])
self.loggerpids.append(pid)
dp_obj = IonObject(RT.DataProduct,
name='the raw data',
description='raw stream test',
temporal_domain=tdom,
spatial_domain=sdom)
data_product_id2 = self.dpclient.create_data_product(
data_product=dp_obj, stream_definition_id=raw_stream_def_id)
log.debug('new dp_id = %s', data_product_id2)
self.damsclient.assign_data_product(input_resource_id=instDevice_id,
data_product_id=data_product_id2)
self.dpclient.activate_data_product_persistence(
data_product_id=data_product_id2)
# setup notifications for the device and parsed data product
user_id_1 = self._create_notification(user_name='user_1',
instrument_id=instDevice_id,
product_id=data_product_id1)
#---------- Create notifications for another user and verify that we see different computed subscriptions for the two users ---------
user_id_2 = self._create_notification(user_name='user_2',
instrument_id=instDevice_id,
product_id=data_product_id2)
# Retrieve the id of the OUTPUT stream from the out Data Product
stream_ids, _ = self.rrclient.find_objects(data_product_id2,
PRED.hasStream, None, True)
log.debug('Data product streams2 = %s', str(stream_ids))
# Retrieve the id of the OUTPUT stream from the out Data Product
dataset_ids, _ = self.rrclient.find_objects(data_product_id2,
PRED.hasDataset,
RT.Dataset, True)
log.debug('Data set for data_product_id2 = %s', dataset_ids[0])
self.raw_dataset = dataset_ids[0]
#elastic search debug
es_indexes, _ = self.container.resource_registry.find_resources(
restype='ElasticSearchIndex')
log.debug('ElasticSearch indexes: %s', [i.name for i in es_indexes])
log.debug('Bootstrap %s', CFG.bootstrap.use_es)
def start_instrument_agent():
self.imsclient.start_instrument_agent_instance(
instrument_agent_instance_id=instAgentInstance_id)
gevent.joinall([gevent.spawn(start_instrument_agent)])
#cleanup
self.addCleanup(self.imsclient.stop_instrument_agent_instance,
instrument_agent_instance_id=instAgentInstance_id)
#wait for start
inst_agent_instance_obj = self.imsclient.read_instrument_agent_instance(
instAgentInstance_id)
gate = AgentProcessStateGate(self.processdispatchclient.read_process,
instDevice_id, ProcessStateEnum.RUNNING)
self.assertTrue(
gate. await (30),
"The instrument agent instance (%s) did not spawn in 30 seconds" %
gate.process_id)
#log.trace('Instrument agent instance obj: = %s' , str(inst_agent_instance_obj))
# Start a resource agent client to talk with the instrument agent.
self._ia_client = ResourceAgentClient(instDevice_id,
to_name=gate.process_id,
process=FakeProcess())
log.debug("test_activateInstrumentSample: got ia client %s",
str(self._ia_client))
cmd = AgentCommand(command=ResourceAgentEvent.INITIALIZE)
retval = self._ia_client.execute_agent(cmd)
log.debug("test_activateInstrumentSample: initialize %s", str(retval))
state = self._ia_client.get_agent_state()
self.assertEqual(ResourceAgentState.INACTIVE, state)
log.debug("(L4-CI-SA-RQ-334): Sending go_active command ")
cmd = AgentCommand(command=ResourceAgentEvent.GO_ACTIVE)
reply = self._ia_client.execute_agent(cmd)
log.debug("test_activateInstrument: return value from go_active %s",
str(reply))
state = self._ia_client.get_agent_state()
self.assertEqual(ResourceAgentState.IDLE, state)
cmd = AgentCommand(command=ResourceAgentEvent.GET_RESOURCE_STATE)
retval = self._ia_client.execute_agent(cmd)
state = retval.result
log.debug(
"(L4-CI-SA-RQ-334): current state after sending go_active command %s",
str(state))
cmd = AgentCommand(command=ResourceAgentEvent.RUN)
reply = self._ia_client.execute_agent(cmd)
log.debug("test_activateInstrumentSample: run %s", str(reply))
state = self._ia_client.get_agent_state()
self.assertEqual(ResourceAgentState.COMMAND, state)
cmd = AgentCommand(command=ResourceAgentEvent.PAUSE)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(ResourceAgentState.STOPPED, state)
cmd = AgentCommand(command=ResourceAgentEvent.RESUME)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(ResourceAgentState.COMMAND, state)
cmd = AgentCommand(command=ResourceAgentEvent.CLEAR)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(ResourceAgentState.IDLE, state)
cmd = AgentCommand(command=ResourceAgentEvent.RUN)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(ResourceAgentState.COMMAND, state)
cmd = AgentCommand(command=SBE37ProtocolEvent.ACQUIRE_SAMPLE)
for i in xrange(10):
retval = self._ia_client.execute_resource(cmd)
log.debug("test_activateInstrumentSample: return from sample %s",
str(retval))
log.debug("test_activateInstrumentSample: calling reset ")
cmd = AgentCommand(command=ResourceAgentEvent.RESET)
reply = self._ia_client.execute_agent(cmd)
log.debug("test_activateInstrumentSample: return from reset %s",
str(reply))
#--------------------------------------------------------------------------------
# Now get the data in one chunk using an RPC Call to start_retreive
#--------------------------------------------------------------------------------
replay_data_raw = self.dataretrieverclient.retrieve(self.raw_dataset)
self.assertIsInstance(replay_data_raw, Granule)
rdt_raw = RecordDictionaryTool.load_from_granule(replay_data_raw)
log.debug("RDT raw: %s", str(rdt_raw.pretty_print()))
self.assertIn('raw', rdt_raw)
raw_vals = rdt_raw['raw']
all_raw = "".join(raw_vals)
# look for 't' entered after a prompt -- ">t"
t_commands = all_raw.count(">t")
if 10 != t_commands:
log.error("%s raw_vals: ", len(raw_vals))
for i, r in enumerate(raw_vals):
log.error("raw val %s: %s", i, [r])
self.fail("Expected 10 't' strings in raw_vals, got %s" %
t_commands)
else:
log.debug("%s raw_vals: ", len(raw_vals))
for i, r in enumerate(raw_vals):
log.debug("raw val %s: %s", i, [r])
replay_data_parsed = self.dataretrieverclient.retrieve(
self.parsed_dataset)
self.assertIsInstance(replay_data_parsed, Granule)
rdt_parsed = RecordDictionaryTool.load_from_granule(replay_data_parsed)
log.debug("test_activateInstrumentSample: RDT parsed: %s",
str(rdt_parsed.pretty_print()))
self.assertIn('temp', rdt_parsed)
temp_vals = rdt_parsed['temp']
pressure_vals = rdt_parsed['pressure']
if 10 != len(temp_vals):
log.error("%s temp_vals: %s", len(temp_vals), temp_vals)
self.fail("Expected 10 temp_vals, got %s" % len(temp_vals))
log.debug("l4-ci-sa-rq-138")
"""
Physical resource control shall be subject to policy
Instrument management control capabilities shall be subject to policy
The actor accessing the control capabilities must be authorized to send commands.
note from maurice 2012-05-18: Talk to tim M to verify that this is policy. If it is then talk with Stephen to
get an example of a policy test and use that to create a test stub that will be
completed when we have instrument policies.
Tim M: The "actor", aka observatory operator, will access the instrument through ION.
"""
#--------------------------------------------------------------------------------
# Get the extended data product to see if it contains the granules
#--------------------------------------------------------------------------------
extended_product = self.dpclient.get_data_product_extension(
data_product_id=data_product_id1, user_id=user_id_1)
def poller(extended_product):
return len(extended_product.computed.user_notification_requests.
value) == 1
poll(poller, extended_product, timeout=30)
self._check_computed_attributes_of_extended_product(
expected_data_product_id=data_product_id1,
extended_data_product=extended_product)
#--------------------------------------------------------------------------------
# Get the extended instrument
#--------------------------------------------------------------------------------
extended_instrument = self.imsclient.get_instrument_device_extension(
instrument_device_id=instDevice_id, user_id=user_id_1)
#--------------------------------------------------------------------------------
# For the second user, check the extended data product and the extended intrument
#--------------------------------------------------------------------------------
extended_product = self.dpclient.get_data_product_extension(
data_product_id=data_product_id2, user_id=user_id_2)
self._check_computed_attributes_of_extended_product(
expected_data_product_id=data_product_id2,
extended_data_product=extended_product)
#--------------------------------------------------------------------------------
# Get the extended instrument
#--------------------------------------------------------------------------------
extended_instrument = self.imsclient.get_instrument_device_extension(
instrument_device_id=instDevice_id, user_id=user_id_2)
self._check_computed_attributes_of_extended_instrument(
expected_instrument_device_id=instDevice_id,
extended_instrument=extended_instrument)
#--------------------------------------------------------------------------------
# Deactivate loggers
#--------------------------------------------------------------------------------
for pid in self.loggerpids:
self.processdispatchclient.cancel_process(pid)
self.dpclient.delete_data_product(data_product_id1)
self.dpclient.delete_data_product(data_product_id2)
class TestDataProductManagementServiceIntegration(IonIntegrationTestCase):
def setUp(self):
# Start container
#print 'instantiating container'
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.dpsc_cli = DataProductManagementServiceClient(node=self.container.node)
self.rrclient = ResourceRegistryServiceClient(node=self.container.node)
self.damsclient = DataAcquisitionManagementServiceClient(node=self.container.node)
self.pubsubcli = PubsubManagementServiceClient(node=self.container.node)
self.ingestclient = IngestionManagementServiceClient(node=self.container.node)
self.process_dispatcher = ProcessDispatcherServiceClient()
self.dataset_management = DatasetManagementServiceClient()
self.unsc = UserNotificationServiceClient()
self.data_retriever = DataRetrieverServiceClient()
#------------------------------------------
# Create the environment
#------------------------------------------
datastore_name = CACHE_DATASTORE_NAME
self.db = self.container.datastore_manager.get_datastore(datastore_name)
self.stream_def_id = self.pubsubcli.create_stream_definition(name='SBE37_CDM')
self.process_definitions = {}
ingestion_worker_definition = ProcessDefinition(name='ingestion worker')
ingestion_worker_definition.executable = {
'module':'ion.processes.data.ingestion.science_granule_ingestion_worker',
'class' :'ScienceGranuleIngestionWorker'
}
process_definition_id = self.process_dispatcher.create_process_definition(process_definition=ingestion_worker_definition)
self.process_definitions['ingestion_worker'] = process_definition_id
self.pids = []
self.exchange_points = []
self.exchange_names = []
#------------------------------------------------------------------------------------------------
# First launch the ingestors
#------------------------------------------------------------------------------------------------
self.exchange_space = 'science_granule_ingestion'
self.exchange_point = 'science_data'
config = DotDict()
config.process.datastore_name = 'datasets'
config.process.queue_name = self.exchange_space
self.exchange_names.append(self.exchange_space)
self.exchange_points.append(self.exchange_point)
pid = self.process_dispatcher.schedule_process(self.process_definitions['ingestion_worker'],configuration=config)
log.debug("the ingestion worker process id: %s", pid)
self.pids.append(pid)
self.addCleanup(self.cleaning_up)
def cleaning_up(self):
for pid in self.pids:
log.debug("number of pids to be terminated: %s", len(self.pids))
try:
self.process_dispatcher.cancel_process(pid)
log.debug("Terminated the process: %s", pid)
except:
log.debug("could not terminate the process id: %s" % pid)
IngestionManagementIntTest.clean_subscriptions()
for xn in self.exchange_names:
xni = self.container.ex_manager.create_xn_queue(xn)
xni.delete()
for xp in self.exchange_points:
xpi = self.container.ex_manager.create_xp(xp)
xpi.delete()
def get_datastore(self, dataset_id):
dataset = self.dataset_management.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def test_create_data_product(self):
#------------------------------------------------------------------------------------------------
# create a stream definition for the data from the ctd simulator
#------------------------------------------------------------------------------------------------
parameter_dictionary_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict')
ctd_stream_def_id = self.pubsubcli.create_stream_definition(name='Simulated CTD data', parameter_dictionary_id=parameter_dictionary_id)
log.debug("Created stream def id %s" % ctd_stream_def_id)
#------------------------------------------------------------------------------------------------
# test creating a new data product w/o a stream definition
#------------------------------------------------------------------------------------------------
# Generic time-series data domain creation
tdom, sdom = time_series_domain()
dp_obj = IonObject(RT.DataProduct,
name='DP1',
description='some new dp',
temporal_domain = tdom.dump(),
spatial_domain = sdom.dump())
log.debug("Created an IonObject for a data product: %s" % dp_obj)
#------------------------------------------------------------------------------------------------
# Create a set of ParameterContext objects to define the parameters in the coverage, add each to the ParameterDictionary
#------------------------------------------------------------------------------------------------
dp_id = self.dpsc_cli.create_data_product( data_product= dp_obj,
stream_definition_id=ctd_stream_def_id)
self.dpsc_cli.activate_data_product_persistence(dp_id)
dp_obj = self.dpsc_cli.read_data_product(dp_id)
self.assertIsNotNone(dp_obj)
#------------------------------------------------------------------------------------------------
# test creating a new data product with a stream definition
#------------------------------------------------------------------------------------------------
log.debug('Creating new data product with a stream definition')
dp_obj = IonObject(RT.DataProduct,
name='DP2',
description='some new dp',
temporal_domain = tdom.dump(),
spatial_domain = sdom.dump())
dp_id2 = self.dpsc_cli.create_data_product(dp_obj, ctd_stream_def_id)
self.dpsc_cli.activate_data_product_persistence(dp_id2)
log.debug('new dp_id = %s' % dp_id2)
#------------------------------------------------------------------------------------------------
#make sure data product is associated with stream def
#------------------------------------------------------------------------------------------------
streamdefs = []
streams, _ = self.rrclient.find_objects(dp_id2, PRED.hasStream, RT.Stream, True)
for s in streams:
log.debug("Checking stream %s" % s)
sdefs, _ = self.rrclient.find_objects(s, PRED.hasStreamDefinition, RT.StreamDefinition, True)
for sd in sdefs:
log.debug("Checking streamdef %s" % sd)
streamdefs.append(sd)
self.assertIn(ctd_stream_def_id, streamdefs)
# test reading a non-existent data product
log.debug('reading non-existent data product')
with self.assertRaises(NotFound):
dp_obj = self.dpsc_cli.read_data_product('some_fake_id')
# update a data product (tests read also)
log.debug('Updating data product')
# first get the existing dp object
dp_obj = self.dpsc_cli.read_data_product(dp_id)
# now tweak the object
dp_obj.description = 'the very first dp'
# now write the dp back to the registry
update_result = self.dpsc_cli.update_data_product(dp_obj)
# now get the dp back to see if it was updated
dp_obj = self.dpsc_cli.read_data_product(dp_id)
self.assertEquals(dp_obj.description,'the very first dp')
#test extension
extended_product = self.dpsc_cli.get_data_product_extension(dp_id)
self.assertEqual(dp_id, extended_product._id)
self.assertEqual(ComputedValueAvailability.PROVIDED,
extended_product.computed.product_download_size_estimated.status)
self.assertEqual(0, extended_product.computed.product_download_size_estimated.value)
self.assertEqual(ComputedValueAvailability.PROVIDED,
extended_product.computed.parameters.status)
#log.debug("test_create_data_product: parameters %s" % extended_product.computed.parameters.value)
# now 'delete' the data product
log.debug("deleting data product: %s" % dp_id)
self.dpsc_cli.delete_data_product(dp_id)
self.dpsc_cli.force_delete_data_product(dp_id)
# now try to get the deleted dp object
with self.assertRaises(NotFound):
dp_obj = self.dpsc_cli.read_data_product(dp_id)
# Get the events corresponding to the data product
ret = self.unsc.get_recent_events(resource_id=dp_id)
events = ret.value
for event in events:
log.debug("event time: %s" % event.ts_created)
# self.assertTrue(len(events) > 0)
def test_data_product_stream_def(self):
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
ctd_stream_def_id = self.pubsubcli.create_stream_definition(name='Simulated CTD data', parameter_dictionary_id=pdict_id)
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
dp_obj = IonObject(RT.DataProduct,
name='DP1',
description='some new dp',
temporal_domain = tdom,
spatial_domain = sdom)
dp_id = self.dpsc_cli.create_data_product(data_product= dp_obj,
stream_definition_id=ctd_stream_def_id)
stream_def_id = self.dpsc_cli.get_data_product_stream_definition(dp_id)
self.assertEquals(ctd_stream_def_id, stream_def_id)
def test_activate_suspend_data_product(self):
#------------------------------------------------------------------------------------------------
# create a stream definition for the data from the ctd simulator
#------------------------------------------------------------------------------------------------
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
ctd_stream_def_id = self.pubsubcli.create_stream_definition(name='Simulated CTD data', parameter_dictionary_id=pdict_id)
log.debug("Created stream def id %s" % ctd_stream_def_id)
#------------------------------------------------------------------------------------------------
# test creating a new data product w/o a stream definition
#------------------------------------------------------------------------------------------------
# Construct temporal and spatial Coordinate Reference System objects
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
dp_obj = IonObject(RT.DataProduct,
name='DP1',
description='some new dp',
temporal_domain = tdom,
spatial_domain = sdom)
log.debug("Created an IonObject for a data product: %s" % dp_obj)
#------------------------------------------------------------------------------------------------
# Create a set of ParameterContext objects to define the parameters in the coverage, add each to the ParameterDictionary
#------------------------------------------------------------------------------------------------
dp_id = self.dpsc_cli.create_data_product(data_product= dp_obj,
stream_definition_id=ctd_stream_def_id)
#------------------------------------------------------------------------------------------------
# test activate and suspend data product persistence
#------------------------------------------------------------------------------------------------
self.dpsc_cli.activate_data_product_persistence(dp_id)
dp_obj = self.dpsc_cli.read_data_product(dp_id)
self.assertIsNotNone(dp_obj)
dataset_ids, _ = self.rrclient.find_objects(subject=dp_id, predicate=PRED.hasDataset, id_only=True)
if not dataset_ids:
raise NotFound("Data Product %s dataset does not exist" % str(dp_id))
self.get_datastore(dataset_ids[0])
# Check that the streams associated with the data product are persisted with
stream_ids, _ = self.rrclient.find_objects(dp_id,PRED.hasStream,RT.Stream,True)
for stream_id in stream_ids:
self.assertTrue(self.ingestclient.is_persisted(stream_id))
#--------------------------------------------------------------------------------
# Now get the data in one chunk using an RPC Call to start_retreive
#--------------------------------------------------------------------------------
replay_data = self.data_retriever.retrieve(dataset_ids[0])
self.assertIsInstance(replay_data, Granule)
log.debug("The data retriever was able to replay the dataset that was attached to the data product "
"we wanted to be persisted. Therefore the data product was indeed persisted with "
"otherwise we could not have retrieved its dataset using the data retriever. Therefore "
"this demonstration shows that L4-CI-SA-RQ-267 is satisfied: 'Data product management shall persist data products'")
data_product_object = self.rrclient.read(dp_id)
self.assertEquals(data_product_object.name,'DP1')
self.assertEquals(data_product_object.description,'some new dp')
log.debug("Towards L4-CI-SA-RQ-308: 'Data product management shall persist data product metadata'. "
" Attributes in create for the data product obj, name= '%s', description='%s', match those of object from the "
"resource registry, name='%s', desc='%s'" % (dp_obj.name, dp_obj.description,data_product_object.name,
data_product_object.description))
#------------------------------------------------------------------------------------------------
# test suspend data product persistence
#------------------------------------------------------------------------------------------------
self.dpsc_cli.suspend_data_product_persistence(dp_id)
self.dpsc_cli.force_delete_data_product(dp_id)
# now try to get the deleted dp object
with self.assertRaises(NotFound):
dp_obj = self.rrclient.read(dp_id)
class TestInstrumentManagementServiceIntegration(IonIntegrationTestCase):
def setUp(self):
# Start container
#print 'instantiating container'
self._start_container()
#container = Container()
#print 'starting container'
#container.start()
#print 'started container'
unittest # suppress an pycharm inspector error if all unittest.skip references are commented out
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.RR = ResourceRegistryServiceClient(node=self.container.node)
self.IMS = InstrumentManagementServiceClient(node=self.container.node)
self.IDS = IdentityManagementServiceClient(node=self.container.node)
self.PSC = PubsubManagementServiceClient(node=self.container.node)
self.DP = DataProductManagementServiceClient(node=self.container.node)
self.DAMS = DataAcquisitionManagementServiceClient(
node=self.container.node)
self.DSC = DatasetManagementServiceClient(node=self.container.node)
self.PDC = ProcessDispatcherServiceClient(node=self.container.node)
self.OMS = ObservatoryManagementServiceClient(node=self.container.node)
self.RR2 = EnhancedResourceRegistryClient(self.RR)
# @unittest.skip('this test just for debugging setup')
# def test_just_the_setup(self):
# return
@attr('EXT')
def test_resources_associations_extensions(self):
"""
create one of each resource and association used by IMS
to guard against problems in ion-definitions
"""
#stuff we control
instrument_agent_instance_id, _ = self.RR.create(
any_old(RT.InstrumentAgentInstance))
instrument_agent_id, _ = self.RR.create(any_old(RT.InstrumentAgent))
instrument_model_id, _ = self.RR.create(any_old(RT.InstrumentModel))
instrument_device_id, _ = self.RR.create(any_old(RT.InstrumentDevice))
instrument_site_id, _ = self.RR.create(any_old(RT.InstrumentSite))
platform_agent_instance_id, _ = self.RR.create(
any_old(RT.PlatformAgentInstance))
platform_agent_id, _ = self.RR.create(any_old(RT.PlatformAgent))
platform_site_id, _ = self.RR.create(any_old(RT.PlatformSite))
platform_device_id, _ = self.RR.create(any_old(RT.PlatformDevice))
platform_model_id, _ = self.RR.create(any_old(RT.PlatformModel))
sensor_device_id, _ = self.RR.create(any_old(RT.SensorDevice))
sensor_model_id, _ = self.RR.create(any_old(RT.SensorModel))
#stuff we associate to
data_producer_id, _ = self.RR.create(any_old(RT.DataProducer))
org_id, _ = self.RR.create(any_old(RT.Org))
#instrument_agent_instance_id #is only a target
#instrument_agent
self.RR.create_association(instrument_agent_id, PRED.hasModel,
instrument_model_id)
self.RR.create_association(instrument_agent_instance_id,
PRED.hasAgentDefinition,
instrument_agent_id)
#instrument_device
self.RR.create_association(instrument_device_id, PRED.hasModel,
instrument_model_id)
self.RR.create_association(instrument_device_id, PRED.hasAgentInstance,
instrument_agent_instance_id)
self.RR.create_association(instrument_device_id, PRED.hasDataProducer,
data_producer_id)
self.RR.create_association(instrument_device_id, PRED.hasDevice,
sensor_device_id)
self.RR.create_association(org_id, PRED.hasResource,
instrument_device_id)
instrument_model_id #is only a target
platform_agent_instance_id #is only a target
#platform_agent
self.RR.create_association(platform_agent_id, PRED.hasModel,
platform_model_id)
self.RR.create_association(platform_agent_instance_id,
PRED.hasAgentDefinition, platform_agent_id)
#platform_device
self.RR.create_association(platform_device_id, PRED.hasModel,
platform_model_id)
self.RR.create_association(platform_device_id, PRED.hasAgentInstance,
platform_agent_instance_id)
self.RR.create_association(platform_device_id, PRED.hasDevice,
instrument_device_id)
self.RR.create_association(instrument_site_id, PRED.hasDevice,
instrument_device_id)
self.RR.create_association(platform_site_id, PRED.hasDevice,
platform_device_id)
self.RR.create_association(platform_site_id, PRED.hasSite,
instrument_site_id)
platform_model_id #is only a target
#sensor_device
self.RR.create_association(sensor_device_id, PRED.hasModel,
sensor_model_id)
self.RR.create_association(sensor_device_id, PRED.hasDevice,
instrument_device_id)
sensor_model_id #is only a target
#create a parsed product for this instrument output
tdom, sdom = time_series_domain()
tdom = tdom.dump()
sdom = sdom.dump()
dp_obj = IonObject(RT.DataProduct,
name='the parsed data',
description='ctd stream test',
processing_level_code='Parsed_Canonical',
temporal_domain=tdom,
spatial_domain=sdom)
pdict_id = self.DSC.read_parameter_dictionary_by_name(
'ctd_parsed_param_dict', id_only=True)
parsed_stream_def_id = self.PSC.create_stream_definition(
name='parsed', parameter_dictionary_id=pdict_id)
data_product_id1 = self.DP.create_data_product(
data_product=dp_obj, stream_definition_id=parsed_stream_def_id)
log.debug('new dp_id = %s', data_product_id1)
self.DAMS.assign_data_product(input_resource_id=instrument_device_id,
data_product_id=data_product_id1)
def addInstOwner(inst_id, subject):
actor_identity_obj = any_old(RT.ActorIdentity, {"name": subject})
user_id = self.IDS.create_actor_identity(actor_identity_obj)
user_info_obj = any_old(RT.UserInfo)
user_info_id = self.IDS.create_user_info(user_id, user_info_obj)
self.RR.create_association(inst_id, PRED.hasOwner, user_id)
#Testing multiple instrument owners
addInstOwner(
instrument_device_id,
"/DC=org/DC=cilogon/C=US/O=ProtectNetwork/CN=Roger Unwin A254")
addInstOwner(
instrument_device_id,
"/DC=org/DC=cilogon/C=US/O=ProtectNetwork/CN=Bob Cumbers A256")
extended_instrument = self.IMS.get_instrument_device_extension(
instrument_device_id)
self.assertEqual(instrument_device_id, extended_instrument._id)
self.assertEqual(len(extended_instrument.owners), 2)
self.assertEqual(extended_instrument.instrument_model._id,
instrument_model_id)
# Lifecycle
self.assertEquals(len(extended_instrument.lcstate_transitions), 5)
self.assertEquals(
set(extended_instrument.lcstate_transitions.keys()),
set(['develop', 'deploy', 'retire', 'plan', 'integrate']))
self.assertEquals(len(extended_instrument.availability_transitions), 2)
self.assertEquals(
set(extended_instrument.availability_transitions.keys()),
set(['enable', 'announce']))
# Verify that computed attributes exist for the extended instrument
self.assertIsInstance(
extended_instrument.computed.last_data_received_datetime,
ComputedFloatValue)
self.assertIsInstance(extended_instrument.computed.uptime,
ComputedStringValue)
self.assertIsInstance(
extended_instrument.computed.power_status_roll_up,
ComputedIntValue)
self.assertIsInstance(
extended_instrument.computed.communications_status_roll_up,
ComputedIntValue)
self.assertIsInstance(extended_instrument.computed.data_status_roll_up,
ComputedIntValue)
self.assertIsInstance(
extended_instrument.computed.location_status_roll_up,
ComputedIntValue)
log.debug("extended_instrument.computed: %s",
extended_instrument.computed)
#check model
inst_model_obj = self.RR.read(instrument_model_id)
self.assertEqual(inst_model_obj.name,
extended_instrument.instrument_model.name)
#check agent instance
inst_agent_instance_obj = self.RR.read(instrument_agent_instance_id)
self.assertEqual(inst_agent_instance_obj.name,
extended_instrument.agent_instance.name)
#check agent
inst_agent_obj = self.RR.read(instrument_agent_id)
#compound assoc return list of lists so check the first element
self.assertEqual(inst_agent_obj.name,
extended_instrument.instrument_agent.name)
#check platform device
plat_device_obj = self.RR.read(platform_device_id)
self.assertEqual(plat_device_obj.name,
extended_instrument.platform_device.name)
extended_platform = self.IMS.get_platform_device_extension(
platform_device_id)
self.assertEqual(1, len(extended_platform.portals))
self.assertEqual(1, len(extended_platform.portal_instruments))
#self.assertEqual(1, len(extended_platform.computed.portal_status.value)) # no agent started so NO statuses reported
self.assertEqual(1, len(extended_platform.instrument_devices))
self.assertEqual(instrument_device_id,
extended_platform.instrument_devices[0]._id)
self.assertEqual(1, len(extended_platform.instrument_models))
self.assertEqual(instrument_model_id,
extended_platform.instrument_models[0]._id)
self.assertEquals(extended_platform.platform_agent._id,
platform_agent_id)
self.assertEquals(len(extended_platform.lcstate_transitions), 5)
self.assertEquals(
set(extended_platform.lcstate_transitions.keys()),
set(['develop', 'deploy', 'retire', 'plan', 'integrate']))
self.assertEquals(len(extended_platform.availability_transitions), 2)
self.assertEquals(
set(extended_platform.availability_transitions.keys()),
set(['enable', 'announce']))
#check sensor devices
self.assertEqual(1, len(extended_instrument.sensor_devices))
#check data_product_parameters_set
self.assertEqual(
ComputedValueAvailability.PROVIDED,
extended_instrument.computed.data_product_parameters_set.status)
self.assertTrue('Parsed_Canonical' in extended_instrument.computed.
data_product_parameters_set.value)
# the ctd parameters should include 'temp'
self.assertTrue('temp' in extended_instrument.computed.
data_product_parameters_set.value['Parsed_Canonical'])
#none of these will work because there is no agent
# self.assertEqual(ComputedValueAvailability.NOTAVAILABLE,
# extended_instrument.computed.firmware_version.status)
# self.assertEqual(ComputedValueAvailability.NOTAVAILABLE,
# extended_instrument.computed.operational_state.status)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.power_status_roll_up.status)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.communications_status_roll_up.status)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.data_status_roll_up.status)
# self.assertEqual(DeviceStatusType.STATUS_OK,
# extended_instrument.computed.data_status_roll_up.value)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.location_status_roll_up.status)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.recent_events.status)
# self.assertEqual([], extended_instrument.computed.recent_events.value)
# cleanup
c = DotDict()
c.resource_registry = self.RR
self.RR2.pluck(instrument_agent_id)
self.RR2.pluck(instrument_model_id)
self.RR2.pluck(instrument_device_id)
self.RR2.pluck(platform_agent_id)
self.RR2.pluck(sensor_device_id)
self.IMS.force_delete_instrument_agent(instrument_agent_id)
self.IMS.force_delete_instrument_model(instrument_model_id)
self.IMS.force_delete_instrument_device(instrument_device_id)
self.IMS.force_delete_platform_agent_instance(
platform_agent_instance_id)
self.IMS.force_delete_platform_agent(platform_agent_id)
self.OMS.force_delete_instrument_site(instrument_site_id)
self.OMS.force_delete_platform_site(platform_site_id)
self.IMS.force_delete_platform_device(platform_device_id)
self.IMS.force_delete_platform_model(platform_model_id)
self.IMS.force_delete_sensor_device(sensor_device_id)
self.IMS.force_delete_sensor_model(sensor_model_id)
#stuff we associate to
self.RR.delete(data_producer_id)
self.RR.delete(org_id)
def test_custom_attributes(self):
"""
Test assignment of custom attributes
"""
instModel_obj = IonObject(OT.CustomAttribute,
name='SBE37IMModelAttr',
description="model custom attr")
instrument_model_id, _ = self.RR.create(
any_old(RT.InstrumentModel,
{"custom_attributes": [instModel_obj]}))
instrument_device_id, _ = self.RR.create(
any_old(
RT.InstrumentDevice, {
"custom_attributes": {
"favorite_color": "red",
"bogus_attr": "should raise warning"
}
}))
self.IMS.assign_instrument_model_to_instrument_device(
instrument_model_id, instrument_device_id)
# cleanup
self.IMS.force_delete_instrument_device(instrument_device_id)
self.IMS.force_delete_instrument_model(instrument_model_id)
def _get_datastore(self, dataset_id):
dataset = self.DSC.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(
datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def test_data_producer(self):
idevice_id = self.IMS.create_instrument_device(
any_old(RT.InstrumentDevice))
self.assertEqual(
1,
len(
self.RR2.
find_data_producer_ids_of_instrument_device_using_has_data_producer(
idevice_id)))
pdevice_id = self.IMS.create_platform_device(any_old(
RT.PlatformDevice))
self.assertEqual(
1,
len(
self.RR2.
find_data_producer_ids_of_platform_device_using_has_data_producer(
pdevice_id)))
@attr('PREP')
def test_prepare_resource_support(self):
"""
create one of each resource and association used by IMS
to guard against problems in ion-definitions
"""
#stuff we control
instrument_agent_instance_id, _ = self.RR.create(
any_old(RT.InstrumentAgentInstance))
instrument_agent_id, _ = self.RR.create(any_old(RT.InstrumentAgent))
instrument_model_id, _ = self.RR.create(any_old(RT.InstrumentModel))
instrument_device_id, _ = self.RR.create(any_old(RT.InstrumentDevice))
platform_agent_instance_id, _ = self.RR.create(
any_old(RT.PlatformAgentInstance))
platform_agent_id, _ = self.RR.create(any_old(RT.PlatformAgent))
platform_device_id, _ = self.RR.create(any_old(RT.PlatformDevice))
platform_model_id, _ = self.RR.create(any_old(RT.PlatformModel))
sensor_device_id, _ = self.RR.create(any_old(RT.SensorDevice))
sensor_model_id, _ = self.RR.create(any_old(RT.SensorModel))
instrument_device2_id, _ = self.RR.create(any_old(RT.InstrumentDevice))
instrument_device3_id, _ = self.RR.create(any_old(RT.InstrumentDevice))
platform_device2_id, _ = self.RR.create(any_old(RT.PlatformDevice))
sensor_device2_id, _ = self.RR.create(any_old(RT.SensorDevice))
#stuff we associate to
data_producer_id, _ = self.RR.create(any_old(RT.DataProducer))
org_id, _ = self.RR.create(any_old(RT.Org))
#instrument_agent_instance_id #is only a target
#instrument_agent
self.RR.create_association(instrument_agent_id, PRED.hasModel,
instrument_model_id)
self.RR.create_association(instrument_agent_instance_id,
PRED.hasAgentDefinition,
instrument_agent_id)
#instrument_device
self.RR.create_association(instrument_device_id, PRED.hasModel,
instrument_model_id)
self.RR.create_association(instrument_device_id, PRED.hasAgentInstance,
instrument_agent_instance_id)
self.RR.create_association(instrument_device_id, PRED.hasDataProducer,
data_producer_id)
self.RR.create_association(instrument_device_id, PRED.hasDevice,
sensor_device_id)
self.RR.create_association(org_id, PRED.hasResource,
instrument_device_id)
self.RR.create_association(instrument_device2_id, PRED.hasModel,
instrument_model_id)
self.RR.create_association(org_id, PRED.hasResource,
instrument_device2_id)
instrument_model_id #is only a target
platform_agent_instance_id #is only a target
#platform_agent
self.RR.create_association(platform_agent_id, PRED.hasModel,
platform_model_id)
self.RR.create_association(platform_agent_instance_id,
PRED.hasAgentDefinition, platform_agent_id)
#platform_device
self.RR.create_association(platform_device_id, PRED.hasModel,
platform_model_id)
self.RR.create_association(platform_device_id, PRED.hasAgentInstance,
platform_agent_instance_id)
self.RR.create_association(platform_device_id, PRED.hasDevice,
instrument_device_id)
self.RR.create_association(platform_device2_id, PRED.hasModel,
platform_model_id)
self.RR.create_association(platform_device2_id, PRED.hasDevice,
instrument_device2_id)
platform_model_id #is only a target
#sensor_device
self.RR.create_association(sensor_device_id, PRED.hasModel,
sensor_model_id)
self.RR.create_association(sensor_device_id, PRED.hasDevice,
instrument_device_id)
self.RR.create_association(sensor_device2_id, PRED.hasModel,
sensor_model_id)
self.RR.create_association(sensor_device2_id, PRED.hasDevice,
instrument_device2_id)
sensor_model_id #is only a target
#set lcstate - used for testing prepare - not setting all to DEVELOP, only some
self.RR.execute_lifecycle_transition(instrument_agent_id, LCE.DEVELOP)
self.RR.execute_lifecycle_transition(instrument_device_id, LCE.DEVELOP)
self.RR.execute_lifecycle_transition(instrument_device2_id,
LCE.DEVELOP)
self.RR.execute_lifecycle_transition(platform_device_id, LCE.DEVELOP)
self.RR.execute_lifecycle_transition(platform_device2_id, LCE.DEVELOP)
self.RR.execute_lifecycle_transition(platform_agent_id, LCE.DEVELOP)
#create a parsed product for this instrument output
tdom, sdom = time_series_domain()
tdom = tdom.dump()
sdom = sdom.dump()
dp_obj = IonObject(RT.DataProduct,
name='the parsed data',
description='ctd stream test',
processing_level_code='Parsed_Canonical',
temporal_domain=tdom,
spatial_domain=sdom)
pdict_id = self.DSC.read_parameter_dictionary_by_name(
'ctd_parsed_param_dict', id_only=True)
parsed_stream_def_id = self.PSC.create_stream_definition(
name='parsed', parameter_dictionary_id=pdict_id)
data_product_id1 = self.DP.create_data_product(
data_product=dp_obj, stream_definition_id=parsed_stream_def_id)
log.debug('new dp_id = %s', data_product_id1)
self.DAMS.assign_data_product(input_resource_id=instrument_device_id,
data_product_id=data_product_id1)
def addInstOwner(inst_id, subject):
actor_identity_obj = any_old(RT.ActorIdentity, {"name": subject})
user_id = self.IDS.create_actor_identity(actor_identity_obj)
user_info_obj = any_old(RT.UserInfo)
user_info_id = self.IDS.create_user_info(user_id, user_info_obj)
self.RR.create_association(inst_id, PRED.hasOwner, user_id)
#Testing multiple instrument owners
addInstOwner(
instrument_device_id,
"/DC=org/DC=cilogon/C=US/O=ProtectNetwork/CN=Roger Unwin A254")
addInstOwner(
instrument_device_id,
"/DC=org/DC=cilogon/C=US/O=ProtectNetwork/CN=Bob Cumbers A256")
def ion_object_encoder(obj):
return obj.__dict__
#First call to create
instrument_data = self.IMS.prepare_instrument_device_support()
#print simplejson.dumps(instrument_data, default=ion_object_encoder, indent=2)
self.assertEqual(instrument_data._id, '')
self.assertEqual(instrument_data.type_,
OT.InstrumentDevicePrepareSupport)
self.assertEqual(
len(instrument_data.associations['InstrumentModel'].resources), 1)
self.assertEqual(
instrument_data.associations['InstrumentModel'].resources[0]._id,
instrument_model_id)
self.assertEqual(
len(instrument_data.associations['InstrumentAgentInstance'].
resources), 1)
self.assertEqual(
instrument_data.associations['InstrumentAgentInstance'].
resources[0]._id, instrument_agent_instance_id)
self.assertEqual(
len(instrument_data.associations['InstrumentModel'].
associated_resources), 0)
self.assertEqual(
len(instrument_data.associations['InstrumentAgentInstance'].
associated_resources), 0)
self.assertEqual(
len(instrument_data.associations['SensorDevice'].resources), 0)
#Next call to update
instrument_data = self.IMS.prepare_instrument_device_support(
instrument_device_id)
#print 'Update results'
#print simplejson.dumps(instrument_data, default=ion_object_encoder, indent=2)
self.assertEqual(instrument_data._id, instrument_device_id)
self.assertEqual(instrument_data.type_,
OT.InstrumentDevicePrepareSupport)
self.assertEqual(
len(instrument_data.associations['InstrumentModel'].resources), 1)
self.assertEqual(
instrument_data.associations['InstrumentModel'].resources[0]._id,
instrument_model_id)
self.assertEqual(
len(instrument_data.associations['InstrumentAgentInstance'].
resources), 1)
self.assertEqual(
instrument_data.associations['InstrumentAgentInstance'].
resources[0]._id, instrument_agent_instance_id)
self.assertEqual(
len(instrument_data.associations['InstrumentModel'].
associated_resources), 1)
self.assertEqual(
instrument_data.associations['InstrumentModel'].
associated_resources[0].s, instrument_device_id)
self.assertEqual(
instrument_data.associations['InstrumentModel'].
associated_resources[0].o, instrument_model_id)
self.assertEqual(
len(instrument_data.associations['InstrumentAgentInstance'].
associated_resources), 1)
self.assertEqual(
instrument_data.associations['InstrumentAgentInstance'].
associated_resources[0].o, instrument_agent_instance_id)
self.assertEqual(
instrument_data.associations['InstrumentAgentInstance'].
associated_resources[0].s, instrument_device_id)
self.assertEqual(
len(instrument_data.associations['SensorDevice'].resources), 1)
self.assertEqual(
instrument_data.associations['SensorDevice'].resources[0]._id,
sensor_device_id)
self.assertEqual(
len(instrument_data.associations['SensorDevice'].
associated_resources), 1)
self.assertEqual(
instrument_data.associations['SensorDevice'].
associated_resources[0].o, instrument_device_id)
self.assertEqual(
instrument_data.associations['SensorDevice'].
associated_resources[0].s, sensor_device_id)
self.assertEqual(
instrument_data.associations['InstrumentModel'].assign_request.
request_parameters['instrument_device_id'], instrument_device_id)
#test prepare for create of instrument agent instance
instrument_agent_data = self.IMS.prepare_instrument_agent_instance_support(
)
#print 'Update results'
#print simplejson.dumps(instrument_agent_data, default=ion_object_encoder, indent=2)
self.assertEqual(instrument_agent_data._id, '')
self.assertEqual(instrument_agent_data.type_,
OT.InstrumentAgentInstancePrepareSupport)
self.assertEqual(
len(instrument_agent_data.associations['InstrumentDevice'].
resources), 2)
self.assertEqual(
len(instrument_agent_data.associations['InstrumentAgent'].resources
), 1)
self.assertEqual(
instrument_agent_data.associations['InstrumentAgent'].resources[0].
_id, instrument_agent_id)
self.assertEqual(
len(instrument_agent_data.associations['InstrumentDevice'].
associated_resources), 0)
self.assertEqual(
len(instrument_agent_data.associations['InstrumentAgent'].
associated_resources), 0)
#test prepare for update of instrument agent instance to see if it is associated with the instrument that was created
instrument_agent_data = self.IMS.prepare_instrument_agent_instance_support(
instrument_agent_instance_id=instrument_agent_instance_id)
#print 'Update results'
#print simplejson.dumps(instrument_agent_data, default=ion_object_encoder, indent=2)
self.assertEqual(instrument_agent_data._id,
instrument_agent_instance_id)
self.assertEqual(instrument_agent_data.type_,
OT.InstrumentAgentInstancePrepareSupport)
self.assertEqual(
len(instrument_agent_data.associations['InstrumentDevice'].
resources), 3)
self.assertEqual(
len(instrument_agent_data.associations['InstrumentAgent'].resources
), 1)
self.assertEqual(
instrument_agent_data.associations['InstrumentAgent'].resources[0].
_id, instrument_agent_id)
self.assertEqual(
len(instrument_agent_data.associations['InstrumentDevice'].
associated_resources), 1)
self.assertEqual(
instrument_agent_data.associations['InstrumentDevice'].
associated_resources[0].s, instrument_device_id)
self.assertEqual(
instrument_agent_data.associations['InstrumentDevice'].
associated_resources[0].o, instrument_agent_instance_id)
self.assertEqual(
len(instrument_agent_data.associations['InstrumentAgent'].
associated_resources), 1)
self.assertEqual(
instrument_agent_data.associations['InstrumentAgent'].
associated_resources[0].o, instrument_agent_id)
self.assertEqual(
instrument_agent_data.associations['InstrumentAgent'].
associated_resources[0].s, instrument_agent_instance_id)
self.assertEqual(
instrument_agent_data.associations['InstrumentAgent'].
assign_request.request_parameters['instrument_agent_instance_id'],
instrument_agent_instance_id)
#test prepare for update of data product to see if it is associated with the instrument that was created
data_product_data = self.DP.prepare_data_product_support(
data_product_id1)
#print simplejson.dumps(data_product_data, default=ion_object_encoder, indent=2)
self.assertEqual(data_product_data._id, data_product_id1)
self.assertEqual(data_product_data.type_, OT.DataProductPrepareSupport)
self.assertEqual(
len(data_product_data.associations['StreamDefinition'].resources),
1)
self.assertEqual(
len(data_product_data.associations['Dataset'].resources), 0)
self.assertEqual(
len(data_product_data.associations['StreamDefinition'].
associated_resources), 1)
self.assertEqual(
data_product_data.associations['StreamDefinition'].
associated_resources[0].s, data_product_id1)
self.assertEqual(
len(data_product_data.associations['Dataset'].associated_resources
), 0)
self.assertEqual(
len(data_product_data.
associations['InstrumentDeviceHasOutputProduct'].resources), 3)
self.assertEqual(
len(data_product_data.associations[
'InstrumentDeviceHasOutputProduct'].associated_resources), 1)
self.assertEqual(
data_product_data.associations['InstrumentDeviceHasOutputProduct'].
associated_resources[0].s, instrument_device_id)
self.assertEqual(
data_product_data.associations['InstrumentDeviceHasOutputProduct'].
associated_resources[0].o, data_product_id1)
self.assertEqual(
len(data_product_data.associations['PlatformDevice'].resources), 2)
platform_data = self.IMS.prepare_platform_device_support()
#print simplejson.dumps(platform_data, default=ion_object_encoder, indent=2)
self.assertEqual(platform_data._id, '')
self.assertEqual(platform_data.type_, OT.PlatformDevicePrepareSupport)
self.assertEqual(
len(platform_data.associations['PlatformModel'].resources), 1)
self.assertEqual(
platform_data.associations['PlatformModel'].resources[0]._id,
platform_model_id)
self.assertEqual(
len(platform_data.associations['PlatformAgentInstance'].resources),
1)
self.assertEqual(
platform_data.associations['PlatformAgentInstance'].resources[0].
_id, platform_agent_instance_id)
self.assertEqual(
len(platform_data.associations['PlatformModel'].
associated_resources), 0)
self.assertEqual(
len(platform_data.associations['PlatformAgentInstance'].
associated_resources), 0)
self.assertEqual(
len(platform_data.associations['InstrumentDevice'].resources), 1)
platform_data = self.IMS.prepare_platform_device_support(
platform_device_id)
#print simplejson.dumps(platform_data, default=ion_object_encoder, indent=2)
self.assertEqual(platform_data._id, platform_device_id)
self.assertEqual(platform_data.type_, OT.PlatformDevicePrepareSupport)
self.assertEqual(
len(platform_data.associations['PlatformModel'].resources), 1)
self.assertEqual(
platform_data.associations['PlatformModel'].resources[0]._id,
platform_model_id)
self.assertEqual(
len(platform_data.associations['PlatformAgentInstance'].resources),
1)
self.assertEqual(
platform_data.associations['PlatformAgentInstance'].resources[0].
_id, platform_agent_instance_id)
self.assertEqual(
len(platform_data.associations['PlatformModel'].
associated_resources), 1)
self.assertEqual(
platform_data.associations['PlatformModel'].
associated_resources[0].s, platform_device_id)
self.assertEqual(
platform_data.associations['PlatformModel'].
associated_resources[0].o, platform_model_id)
self.assertEqual(
len(platform_data.associations['PlatformAgentInstance'].
associated_resources), 1)
self.assertEqual(
platform_data.associations['PlatformAgentInstance'].
associated_resources[0].o, platform_agent_instance_id)
self.assertEqual(
platform_data.associations['PlatformAgentInstance'].
associated_resources[0].s, platform_device_id)
self.assertEqual(
len(platform_data.associations['InstrumentDevice'].resources), 2)
#self.assertEqual(len(platform_data.associations['InstrumentDevice'].associated_resources), 1)
#self.assertEqual(platform_data.associations['InstrumentDevice'].associated_resources[0].s, platform_device_id)
#self.assertEqual(platform_data.associations['InstrumentDevice'].associated_resources[0].o, instrument_device_id)
self.assertEqual(
platform_data.associations['PlatformModel'].assign_request.
request_parameters['platform_device_id'], platform_device_id)
# cleanup
c = DotDict()
c.resource_registry = self.RR
self.RR2.pluck(instrument_agent_id)
self.RR2.pluck(instrument_model_id)
self.RR2.pluck(instrument_device_id)
self.RR2.pluck(platform_agent_id)
self.RR2.pluck(sensor_device_id)
self.RR2.pluck(sensor_device2_id)
self.IMS.force_delete_instrument_agent(instrument_agent_id)
self.IMS.force_delete_instrument_model(instrument_model_id)
self.IMS.force_delete_instrument_device(instrument_device_id)
self.IMS.force_delete_instrument_device(instrument_device2_id)
self.IMS.force_delete_platform_agent_instance(
platform_agent_instance_id)
self.IMS.force_delete_platform_agent(platform_agent_id)
self.IMS.force_delete_platform_device(platform_device_id)
self.IMS.force_delete_platform_device(platform_device2_id)
self.IMS.force_delete_platform_model(platform_model_id)
self.IMS.force_delete_sensor_device(sensor_device_id)
self.IMS.force_delete_sensor_device(sensor_device2_id)
self.IMS.force_delete_sensor_model(sensor_model_id)
#stuff we associate to
self.RR.delete(data_producer_id)
self.RR.delete(org_id)
class TestInstrumentManagementServiceIntegration(IonIntegrationTestCase):
def setUp(self):
# Start container
#print 'instantiating container'
self._start_container()
#container = Container()
#print 'starting container'
#container.start()
#print 'started container'
unittest # suppress an pycharm inspector error if all unittest.skip references are commented out
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.RR = ResourceRegistryServiceClient(node=self.container.node)
self.IMS = InstrumentManagementServiceClient(node=self.container.node)
self.IDS = IdentityManagementServiceClient(node=self.container.node)
self.PSC = PubsubManagementServiceClient(node=self.container.node)
self.DP = DataProductManagementServiceClient(node=self.container.node)
self.DAMS = DataAcquisitionManagementServiceClient(node=self.container.node)
self.DSC = DatasetManagementServiceClient(node=self.container.node)
self.PDC = ProcessDispatcherServiceClient(node=self.container.node)
self.OMS = ObservatoryManagementServiceClient(node=self.container.node)
self.RR2 = EnhancedResourceRegistryClient(self.RR)
# @unittest.skip('this test just for debugging setup')
# def test_just_the_setup(self):
# return
@attr('EXT')
@unittest.skipIf(os.getenv('CEI_LAUNCH_TEST', False), 'Skip test while in CEI LAUNCH mode as it depends on modifying CFG on service side')
def test_resources_associations_extensions(self):
"""
create one of each resource and association used by IMS
to guard against problems in ion-definitions
"""
self.patch_cfg(CFG["container"], {"extended_resources": {"strip_results": False}})
#stuff we control
instrument_agent_instance_id, _ = self.RR.create(any_old(RT.InstrumentAgentInstance))
instrument_agent_id, _ = self.RR.create(any_old(RT.InstrumentAgent))
instrument_model_id, _ = self.RR.create(any_old(RT.InstrumentModel))
instrument_device_id, _ = self.RR.create(any_old(RT.InstrumentDevice))
instrument_site_id, _ = self.RR.create(any_old(RT.InstrumentSite))
platform_agent_instance_id, _ = self.RR.create(any_old(RT.PlatformAgentInstance))
platform_agent_id, _ = self.RR.create(any_old(RT.PlatformAgent))
platform_site_id, _ = self.RR.create(any_old(RT.PlatformSite))
platform_device_id, _ = self.RR.create(any_old(RT.PlatformDevice))
platform_model_id, _ = self.RR.create(any_old(RT.PlatformModel))
sensor_device_id, _ = self.RR.create(any_old(RT.SensorDevice))
sensor_model_id, _ = self.RR.create(any_old(RT.SensorModel))
#stuff we associate to
data_producer_id, _ = self.RR.create(any_old(RT.DataProducer))
org_id, _ = self.RR.create(any_old(RT.Org))
#instrument_agent_instance_id #is only a target
#instrument_agent
self.RR.create_association(instrument_agent_id, PRED.hasModel, instrument_model_id)
self.RR.create_association(instrument_agent_instance_id, PRED.hasAgentDefinition, instrument_agent_id)
#instrument_device
self.RR.create_association(instrument_device_id, PRED.hasModel, instrument_model_id)
self.RR.create_association(instrument_device_id, PRED.hasAgentInstance, instrument_agent_instance_id)
self.RR.create_association(instrument_device_id, PRED.hasDataProducer, data_producer_id)
self.RR.create_association(instrument_device_id, PRED.hasDevice, sensor_device_id)
self.RR.create_association(org_id, PRED.hasResource, instrument_device_id)
instrument_model_id #is only a target
platform_agent_instance_id #is only a target
#platform_agent
self.RR.create_association(platform_agent_id, PRED.hasModel, platform_model_id)
self.RR.create_association(platform_agent_instance_id, PRED.hasAgentDefinition, platform_agent_id)
#platform_device
self.RR.create_association(platform_device_id, PRED.hasModel, platform_model_id)
self.RR.create_association(platform_device_id, PRED.hasAgentInstance, platform_agent_instance_id)
self.RR.create_association(platform_device_id, PRED.hasDevice, instrument_device_id)
self.RR.create_association(instrument_site_id, PRED.hasDevice, instrument_device_id)
self.RR.create_association(platform_site_id, PRED.hasDevice, platform_device_id)
self.RR.create_association(platform_site_id, PRED.hasSite, instrument_site_id)
platform_model_id #is only a target
#sensor_device
self.RR.create_association(sensor_device_id, PRED.hasModel, sensor_model_id)
self.RR.create_association(sensor_device_id, PRED.hasDevice, instrument_device_id)
sensor_model_id #is only a target
#create a parsed product for this instrument output
dp_obj = IonObject(RT.DataProduct,
name='the parsed data',
description='ctd stream test',
processing_level_code='Parsed_Canonical')
pdict_id = self.DSC.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
parsed_stream_def_id = self.PSC.create_stream_definition(name='parsed', parameter_dictionary_id=pdict_id)
data_product_id1 = self.DP.create_data_product(data_product=dp_obj, stream_definition_id=parsed_stream_def_id)
log.debug( 'new dp_id = %s', data_product_id1)
self.DAMS.assign_data_product(input_resource_id=instrument_device_id, data_product_id=data_product_id1)
def addInstOwner(inst_id, subject):
actor_identity_obj = any_old(RT.ActorIdentity, {"name": subject})
user_id = self.IDS.create_actor_identity(actor_identity_obj)
user_info_obj = any_old(RT.UserInfo)
user_info_id = self.IDS.create_user_info(user_id, user_info_obj)
self.RR.create_association(inst_id, PRED.hasOwner, user_id)
#Testing multiple instrument owners
addInstOwner(instrument_device_id, "/DC=org/DC=cilogon/C=US/O=ProtectNetwork/CN=Roger Unwin A254")
addInstOwner(instrument_device_id, "/DC=org/DC=cilogon/C=US/O=ProtectNetwork/CN=Bob Cumbers A256")
extended_instrument = self.IMS.get_instrument_device_extension(instrument_device_id)
self.assertEqual(instrument_device_id, extended_instrument._id)
self.assertEqual(len(extended_instrument.owners), 2)
self.assertEqual(extended_instrument.instrument_model._id, instrument_model_id)
# Lifecycle
self.assertEquals(len(extended_instrument.lcstate_transitions), 6)
self.assertEquals(set(extended_instrument.lcstate_transitions.keys()), set(['develop', 'deploy', 'retire', 'plan', 'integrate', 'delete']))
self.assertEquals(len(extended_instrument.availability_transitions), 2)
self.assertEquals(set(extended_instrument.availability_transitions.keys()), set(['enable', 'announce']))
# Verify that computed attributes exist for the extended instrument
self.assertIsInstance(extended_instrument.computed.last_data_received_datetime, ComputedFloatValue)
self.assertIsInstance(extended_instrument.computed.uptime, ComputedStringValue)
self.assertIsInstance(extended_instrument.computed.power_status_roll_up, ComputedIntValue)
self.assertIsInstance(extended_instrument.computed.communications_status_roll_up, ComputedIntValue)
self.assertIsInstance(extended_instrument.computed.data_status_roll_up, ComputedIntValue)
self.assertIsInstance(extended_instrument.computed.location_status_roll_up, ComputedIntValue)
log.debug("extended_instrument.computed: %s", extended_instrument.computed)
#check model
inst_model_obj = self.RR.read(instrument_model_id)
self.assertEqual(inst_model_obj.name, extended_instrument.instrument_model.name)
#check agent instance
inst_agent_instance_obj = self.RR.read(instrument_agent_instance_id)
self.assertEqual(inst_agent_instance_obj.name, extended_instrument.agent_instance.name)
#check agent
inst_agent_obj = self.RR.read(instrument_agent_id)
#compound assoc return list of lists so check the first element
self.assertEqual(inst_agent_obj.name, extended_instrument.instrument_agent.name)
#check platform device
plat_device_obj = self.RR.read(platform_device_id)
self.assertEqual(plat_device_obj.name, extended_instrument.platform_device.name)
extended_platform = self.IMS.get_platform_device_extension(platform_device_id)
self.assertEqual(1, len(extended_platform.portals))
self.assertEqual(1, len(extended_platform.portal_instruments))
#self.assertEqual(1, len(extended_platform.computed.portal_status.value)) # no agent started so NO statuses reported
self.assertEqual(1, len(extended_platform.instrument_devices))
self.assertEqual(instrument_device_id, extended_platform.instrument_devices[0]._id)
self.assertEqual(1, len(extended_platform.instrument_models))
self.assertEqual(instrument_model_id, extended_platform.instrument_models[0]._id)
self.assertEquals(extended_platform.platform_agent._id, platform_agent_id)
self.assertEquals(len(extended_platform.lcstate_transitions), 6)
self.assertEquals(set(extended_platform.lcstate_transitions.keys()), set(['develop', 'deploy', 'retire', 'plan', 'integrate', 'delete']))
self.assertEquals(len(extended_platform.availability_transitions), 2)
self.assertEquals(set(extended_platform.availability_transitions.keys()), set(['enable', 'announce']))
#check sensor devices
self.assertEqual(1, len(extended_instrument.sensor_devices))
##check data_product_parameters_set
# !!! OOIION-1342 The UI does not use data_product_parameters_set and it is an expensive calc so the attribute calc was disabled
# !!! Remove check in this test
#self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.data_product_parameters_set.status)
#self.assertTrue( 'Parsed_Canonical' in extended_instrument.computed.data_product_parameters_set.value)
## the ctd parameters should include 'temp'
#self.assertTrue( 'temp' in extended_instrument.computed.data_product_parameters_set.value['Parsed_Canonical'])
#none of these will work because there is no agent
# self.assertEqual(ComputedValueAvailability.NOTAVAILABLE,
# extended_instrument.computed.firmware_version.status)
# self.assertEqual(ComputedValueAvailability.NOTAVAILABLE,
# extended_instrument.computed.operational_state.status)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.power_status_roll_up.status)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.communications_status_roll_up.status)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.data_status_roll_up.status)
# self.assertEqual(DeviceStatusType.STATUS_OK,
# extended_instrument.computed.data_status_roll_up.value)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.location_status_roll_up.status)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.recent_events.status)
# self.assertEqual([], extended_instrument.computed.recent_events.value)
# cleanup
c = DotDict()
c.resource_registry = self.RR
self.RR2.pluck(instrument_agent_id)
self.RR2.pluck(instrument_model_id)
self.RR2.pluck(instrument_device_id)
self.RR2.pluck(platform_agent_id)
self.RR2.pluck(sensor_device_id)
self.IMS.force_delete_instrument_agent(instrument_agent_id)
self.IMS.force_delete_instrument_model(instrument_model_id)
self.IMS.force_delete_instrument_device(instrument_device_id)
self.IMS.force_delete_platform_agent_instance(platform_agent_instance_id)
self.IMS.force_delete_platform_agent(platform_agent_id)
self.OMS.force_delete_instrument_site(instrument_site_id)
self.OMS.force_delete_platform_site(platform_site_id)
self.IMS.force_delete_platform_device(platform_device_id)
self.IMS.force_delete_platform_model(platform_model_id)
self.IMS.force_delete_sensor_device(sensor_device_id)
self.IMS.force_delete_sensor_model(sensor_model_id)
#stuff we associate to
self.RR.delete(data_producer_id)
self.RR.delete(org_id)
def test_custom_attributes(self):
"""
Test assignment of custom attributes
"""
instModel_obj = IonObject(OT.CustomAttribute,
name='SBE37IMModelAttr',
description="model custom attr")
instrument_model_id, _ = self.RR.create(any_old(RT.InstrumentModel,
{"custom_attributes":
[instModel_obj]
}))
instrument_device_id, _ = self.RR.create(any_old(RT.InstrumentDevice,
{"custom_attributes":
{"favorite_color": "red",
"bogus_attr": "should raise warning"
}
}))
self.IMS.assign_instrument_model_to_instrument_device(instrument_model_id, instrument_device_id)
# cleanup
self.IMS.force_delete_instrument_device(instrument_device_id)
self.IMS.force_delete_instrument_model(instrument_model_id)
def _get_datastore(self, dataset_id):
dataset = self.DSC.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def test_data_producer(self):
idevice_id = self.IMS.create_instrument_device(any_old(RT.InstrumentDevice))
self.assertEqual(1, len(self.RR2.find_data_producer_ids_of_instrument_device_using_has_data_producer(idevice_id)))
pdevice_id = self.IMS.create_platform_device(any_old(RT.PlatformDevice))
self.assertEqual(1, len(self.RR2.find_data_producer_ids_of_platform_device_using_has_data_producer(pdevice_id)))
@attr('PREP')
def test_prepare_resource_support(self):
"""
create one of each resource and association used by IMS
to guard against problems in ion-definitions
"""
#stuff we control
instrument_agent_instance_id, _ = self.RR.create(any_old(RT.InstrumentAgentInstance))
instrument_agent_id, _ = self.RR.create(any_old(RT.InstrumentAgent))
instrument_model_id, _ = self.RR.create(any_old(RT.InstrumentModel))
instrument_device_id, _ = self.RR.create(any_old(RT.InstrumentDevice))
platform_agent_instance_id, _ = self.RR.create(any_old(RT.PlatformAgentInstance))
platform_agent_id, _ = self.RR.create(any_old(RT.PlatformAgent))
platform_device_id, _ = self.RR.create(any_old(RT.PlatformDevice))
platform_model_id, _ = self.RR.create(any_old(RT.PlatformModel))
sensor_device_id, _ = self.RR.create(any_old(RT.SensorDevice))
sensor_model_id, _ = self.RR.create(any_old(RT.SensorModel))
instrument_device2_id, _ = self.RR.create(any_old(RT.InstrumentDevice))
instrument_device3_id, _ = self.RR.create(any_old(RT.InstrumentDevice))
platform_device2_id, _ = self.RR.create(any_old(RT.PlatformDevice))
sensor_device2_id, _ = self.RR.create(any_old(RT.SensorDevice))
#stuff we associate to
data_producer_id, _ = self.RR.create(any_old(RT.DataProducer))
org_id, _ = self.RR.create(any_old(RT.Org))
#instrument_agent_instance_id #is only a target
#instrument_agent
self.RR.create_association(instrument_agent_id, PRED.hasModel, instrument_model_id)
self.RR.create_association(instrument_agent_instance_id, PRED.hasAgentDefinition, instrument_agent_id)
#instrument_device
self.RR.create_association(instrument_device_id, PRED.hasModel, instrument_model_id)
self.RR.create_association(instrument_device_id, PRED.hasAgentInstance, instrument_agent_instance_id)
self.RR.create_association(instrument_device_id, PRED.hasDataProducer, data_producer_id)
self.RR.create_association(instrument_device_id, PRED.hasDevice, sensor_device_id)
self.RR.create_association(org_id, PRED.hasResource, instrument_device_id)
self.RR.create_association(instrument_device2_id, PRED.hasModel, instrument_model_id)
self.RR.create_association(org_id, PRED.hasResource, instrument_device2_id)
instrument_model_id #is only a target
platform_agent_instance_id #is only a target
#platform_agent
self.RR.create_association(platform_agent_id, PRED.hasModel, platform_model_id)
self.RR.create_association(platform_agent_instance_id, PRED.hasAgentDefinition, platform_agent_id)
#platform_device
self.RR.create_association(platform_device_id, PRED.hasModel, platform_model_id)
self.RR.create_association(platform_device_id, PRED.hasAgentInstance, platform_agent_instance_id)
self.RR.create_association(platform_device_id, PRED.hasDevice, instrument_device_id)
self.RR.create_association(platform_device2_id, PRED.hasModel, platform_model_id)
self.RR.create_association(platform_device2_id, PRED.hasDevice, instrument_device2_id)
platform_model_id #is only a target
#sensor_device
self.RR.create_association(sensor_device_id, PRED.hasModel, sensor_model_id)
self.RR.create_association(sensor_device_id, PRED.hasDevice, instrument_device_id)
self.RR.create_association(sensor_device2_id, PRED.hasModel, sensor_model_id)
self.RR.create_association(sensor_device2_id, PRED.hasDevice, instrument_device2_id)
sensor_model_id #is only a target
#set lcstate - used for testing prepare - not setting all to DEVELOP, only some
self.RR.execute_lifecycle_transition(instrument_agent_id, LCE.DEVELOP)
self.RR.execute_lifecycle_transition(instrument_device_id, LCE.DEVELOP)
self.RR.execute_lifecycle_transition(instrument_device2_id, LCE.DEVELOP)
self.RR.execute_lifecycle_transition(platform_device_id, LCE.DEVELOP)
self.RR.execute_lifecycle_transition(platform_device2_id, LCE.DEVELOP)
self.RR.execute_lifecycle_transition(platform_agent_id, LCE.DEVELOP)
#create a parsed product for this instrument output
dp_obj = IonObject(RT.DataProduct,
name='the parsed data',
description='ctd stream test',
processing_level_code='Parsed_Canonical')
pdict_id = self.DSC.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
parsed_stream_def_id = self.PSC.create_stream_definition(name='parsed', parameter_dictionary_id=pdict_id)
data_product_id1 = self.DP.create_data_product(data_product=dp_obj, stream_definition_id=parsed_stream_def_id)
log.debug( 'new dp_id = %s', data_product_id1)
self.DAMS.assign_data_product(input_resource_id=instrument_device_id, data_product_id=data_product_id1)
def addInstOwner(inst_id, subject):
actor_identity_obj = any_old(RT.ActorIdentity, {"name": subject})
user_id = self.IDS.create_actor_identity(actor_identity_obj)
user_info_obj = any_old(RT.UserInfo)
user_info_id = self.IDS.create_user_info(user_id, user_info_obj)
self.RR.create_association(inst_id, PRED.hasOwner, user_id)
#Testing multiple instrument owners
addInstOwner(instrument_device_id, "/DC=org/DC=cilogon/C=US/O=ProtectNetwork/CN=Roger Unwin A254")
addInstOwner(instrument_device_id, "/DC=org/DC=cilogon/C=US/O=ProtectNetwork/CN=Bob Cumbers A256")
def ion_object_encoder(obj):
return obj.__dict__
#First call to create
instrument_data = self.IMS.prepare_instrument_device_support()
#print simplejson.dumps(instrument_data, default=ion_object_encoder, indent=2)
self.assertEqual(instrument_data._id, '')
self.assertEqual(instrument_data.type_, OT.InstrumentDevicePrepareSupport)
self.assertEqual(len(instrument_data.associations['InstrumentModel'].resources), 1)
self.assertEqual(instrument_data.associations['InstrumentModel'].resources[0]._id, instrument_model_id)
self.assertEqual(len(instrument_data.associations['InstrumentAgentInstance'].resources), 1)
self.assertEqual(instrument_data.associations['InstrumentAgentInstance'].resources[0]._id, instrument_agent_instance_id)
self.assertEqual(len(instrument_data.associations['InstrumentModel'].associated_resources), 0)
self.assertEqual(len(instrument_data.associations['InstrumentAgentInstance'].associated_resources), 0)
self.assertEqual(len(instrument_data.associations['SensorDevice'].resources), 0)
#Next call to update
instrument_data = self.IMS.prepare_instrument_device_support(instrument_device_id)
#print 'Update results'
#print simplejson.dumps(instrument_data, default=ion_object_encoder, indent=2)
self.assertEqual(instrument_data._id, instrument_device_id)
self.assertEqual(instrument_data.type_, OT.InstrumentDevicePrepareSupport)
self.assertEqual(len(instrument_data.associations['InstrumentModel'].resources), 1)
self.assertEqual(instrument_data.associations['InstrumentModel'].resources[0]._id, instrument_model_id)
self.assertEqual(len(instrument_data.associations['InstrumentAgentInstance'].resources), 1)
self.assertEqual(instrument_data.associations['InstrumentAgentInstance'].resources[0]._id, instrument_agent_instance_id)
self.assertEqual(len(instrument_data.associations['InstrumentModel'].associated_resources), 1)
self.assertEqual(instrument_data.associations['InstrumentModel'].associated_resources[0].s, instrument_device_id)
self.assertEqual(instrument_data.associations['InstrumentModel'].associated_resources[0].o, instrument_model_id)
self.assertEqual(len(instrument_data.associations['InstrumentAgentInstance'].associated_resources), 1)
self.assertEqual(instrument_data.associations['InstrumentAgentInstance'].associated_resources[0].o, instrument_agent_instance_id)
self.assertEqual(instrument_data.associations['InstrumentAgentInstance'].associated_resources[0].s, instrument_device_id)
self.assertEqual(len(instrument_data.associations['SensorDevice'].resources), 1)
self.assertEqual(instrument_data.associations['SensorDevice'].resources[0]._id, sensor_device_id)
self.assertEqual(len(instrument_data.associations['SensorDevice'].associated_resources), 1)
self.assertEqual(instrument_data.associations['SensorDevice'].associated_resources[0].o, instrument_device_id)
self.assertEqual(instrument_data.associations['SensorDevice'].associated_resources[0].s, sensor_device_id)
self.assertEqual(instrument_data.associations['InstrumentModel'].assign_request.request_parameters['instrument_device_id'], instrument_device_id)
#test prepare for create of instrument agent instance
instrument_agent_data = self.IMS.prepare_instrument_agent_instance_support()
#print 'Update results'
#print simplejson.dumps(instrument_agent_data, default=ion_object_encoder, indent=2)
self.assertEqual(instrument_agent_data._id, '')
self.assertEqual(instrument_agent_data.type_, OT.InstrumentAgentInstancePrepareSupport)
self.assertEqual(len(instrument_agent_data.associations['InstrumentDevice'].resources), 2)
self.assertEqual(len(instrument_agent_data.associations['InstrumentAgent'].resources), 1)
self.assertEqual(instrument_agent_data.associations['InstrumentAgent'].resources[0]._id, instrument_agent_id)
self.assertEqual(len(instrument_agent_data.associations['InstrumentDevice'].associated_resources), 0)
self.assertEqual(len(instrument_agent_data.associations['InstrumentAgent'].associated_resources), 0)
#test prepare for update of instrument agent instance to see if it is associated with the instrument that was created
instrument_agent_data = self.IMS.prepare_instrument_agent_instance_support(instrument_agent_instance_id=instrument_agent_instance_id)
#print 'Update results'
#print simplejson.dumps(instrument_agent_data, default=ion_object_encoder, indent=2)
self.assertEqual(instrument_agent_data._id, instrument_agent_instance_id)
self.assertEqual(instrument_agent_data.type_, OT.InstrumentAgentInstancePrepareSupport)
self.assertEqual(len(instrument_agent_data.associations['InstrumentDevice'].resources), 3)
self.assertEqual(len(instrument_agent_data.associations['InstrumentAgent'].resources), 1)
self.assertEqual(instrument_agent_data.associations['InstrumentAgent'].resources[0]._id, instrument_agent_id)
self.assertEqual(len(instrument_agent_data.associations['InstrumentDevice'].associated_resources), 1)
self.assertEqual(instrument_agent_data.associations['InstrumentDevice'].associated_resources[0].s, instrument_device_id)
self.assertEqual(instrument_agent_data.associations['InstrumentDevice'].associated_resources[0].o, instrument_agent_instance_id)
self.assertEqual(len(instrument_agent_data.associations['InstrumentAgent'].associated_resources), 1)
self.assertEqual(instrument_agent_data.associations['InstrumentAgent'].associated_resources[0].o, instrument_agent_id)
self.assertEqual(instrument_agent_data.associations['InstrumentAgent'].associated_resources[0].s, instrument_agent_instance_id)
self.assertEqual(instrument_agent_data.associations['InstrumentAgent'].assign_request.request_parameters['instrument_agent_instance_id'], instrument_agent_instance_id)
#test prepare for update of data product to see if it is associated with the instrument that was created
data_product_data = self.DP.prepare_data_product_support(data_product_id1)
#print simplejson.dumps(data_product_data, default=ion_object_encoder, indent=2)
self.assertEqual(data_product_data._id, data_product_id1)
self.assertEqual(data_product_data.type_, OT.DataProductPrepareSupport)
self.assertEqual(len(data_product_data.associations['StreamDefinition'].resources), 1)
self.assertEqual(len(data_product_data.associations['Dataset'].resources), 0)
self.assertEqual(len(data_product_data.associations['StreamDefinition'].associated_resources), 1)
self.assertEqual(data_product_data.associations['StreamDefinition'].associated_resources[0].s, data_product_id1)
self.assertEqual(len(data_product_data.associations['Dataset'].associated_resources), 0)
self.assertEqual(len(data_product_data.associations['InstrumentDeviceHasOutputProduct'].resources), 3)
self.assertEqual(len(data_product_data.associations['InstrumentDeviceHasOutputProduct'].associated_resources), 1)
self.assertEqual(data_product_data.associations['InstrumentDeviceHasOutputProduct'].associated_resources[0].s, instrument_device_id)
self.assertEqual(data_product_data.associations['InstrumentDeviceHasOutputProduct'].associated_resources[0].o, data_product_id1)
self.assertEqual(len(data_product_data.associations['PlatformDevice'].resources), 2)
platform_data = self.IMS.prepare_platform_device_support()
#print simplejson.dumps(platform_data, default=ion_object_encoder, indent=2)
self.assertEqual(platform_data._id, '')
self.assertEqual(platform_data.type_, OT.PlatformDevicePrepareSupport)
self.assertEqual(len(platform_data.associations['PlatformModel'].resources), 1)
self.assertEqual(platform_data.associations['PlatformModel'].resources[0]._id, platform_model_id)
self.assertEqual(len(platform_data.associations['PlatformAgentInstance'].resources), 1)
self.assertEqual(platform_data.associations['PlatformAgentInstance'].resources[0]._id, platform_agent_instance_id)
self.assertEqual(len(platform_data.associations['PlatformModel'].associated_resources), 0)
self.assertEqual(len(platform_data.associations['PlatformAgentInstance'].associated_resources), 0)
self.assertEqual(len(platform_data.associations['InstrumentDevice'].resources), 1)
platform_data = self.IMS.prepare_platform_device_support(platform_device_id)
#print simplejson.dumps(platform_data, default=ion_object_encoder, indent=2)
self.assertEqual(platform_data._id, platform_device_id)
self.assertEqual(platform_data.type_, OT.PlatformDevicePrepareSupport)
self.assertEqual(len(platform_data.associations['PlatformModel'].resources), 1)
self.assertEqual(platform_data.associations['PlatformModel'].resources[0]._id, platform_model_id)
self.assertEqual(len(platform_data.associations['PlatformAgentInstance'].resources), 1)
self.assertEqual(platform_data.associations['PlatformAgentInstance'].resources[0]._id, platform_agent_instance_id)
self.assertEqual(len(platform_data.associations['PlatformModel'].associated_resources), 1)
self.assertEqual(platform_data.associations['PlatformModel'].associated_resources[0].s, platform_device_id)
self.assertEqual(platform_data.associations['PlatformModel'].associated_resources[0].o, platform_model_id)
self.assertEqual(len(platform_data.associations['PlatformAgentInstance'].associated_resources), 1)
self.assertEqual(platform_data.associations['PlatformAgentInstance'].associated_resources[0].o, platform_agent_instance_id)
self.assertEqual(platform_data.associations['PlatformAgentInstance'].associated_resources[0].s, platform_device_id)
self.assertEqual(len(platform_data.associations['InstrumentDevice'].resources), 2)
#self.assertEqual(len(platform_data.associations['InstrumentDevice'].associated_resources), 1)
#self.assertEqual(platform_data.associations['InstrumentDevice'].associated_resources[0].s, platform_device_id)
#self.assertEqual(platform_data.associations['InstrumentDevice'].associated_resources[0].o, instrument_device_id)
self.assertEqual(platform_data.associations['PlatformModel'].assign_request.request_parameters['platform_device_id'], platform_device_id)
# cleanup
c = DotDict()
c.resource_registry = self.RR
self.RR2.pluck(instrument_agent_id)
self.RR2.pluck(instrument_model_id)
self.RR2.pluck(instrument_device_id)
self.RR2.pluck(platform_agent_id)
self.RR2.pluck(sensor_device_id)
self.RR2.pluck(sensor_device2_id)
self.IMS.force_delete_instrument_agent(instrument_agent_id)
self.IMS.force_delete_instrument_model(instrument_model_id)
self.IMS.force_delete_instrument_device(instrument_device_id)
self.IMS.force_delete_instrument_device(instrument_device2_id)
self.IMS.force_delete_platform_agent_instance(platform_agent_instance_id)
self.IMS.force_delete_platform_agent(platform_agent_id)
self.IMS.force_delete_platform_device(platform_device_id)
self.IMS.force_delete_platform_device(platform_device2_id)
self.IMS.force_delete_platform_model(platform_model_id)
self.IMS.force_delete_sensor_device(sensor_device_id)
self.IMS.force_delete_sensor_device(sensor_device2_id)
self.IMS.force_delete_sensor_model(sensor_model_id)
#stuff we associate to
self.RR.delete(data_producer_id)
self.RR.delete(org_id)
class TestDataProductManagementServiceIntegration(IonIntegrationTestCase):
def setUp(self):
# Start container
#print 'instantiating container'
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.dpsc_cli = DataProductManagementServiceClient(node=self.container.node)
self.rrclient = ResourceRegistryServiceClient(node=self.container.node)
self.damsclient = DataAcquisitionManagementServiceClient(node=self.container.node)
self.pubsubcli = PubsubManagementServiceClient(node=self.container.node)
self.ingestclient = IngestionManagementServiceClient(node=self.container.node)
self.process_dispatcher = ProcessDispatcherServiceClient()
self.dataset_management = DatasetManagementServiceClient()
self.unsc = UserNotificationServiceClient()
#------------------------------------------
# Create the environment
#------------------------------------------
datastore_name = CACHE_DATASTORE_NAME
self.db = self.container.datastore_manager.get_datastore(datastore_name)
self.stream_def_id = self.pubsubcli.create_stream_definition(name='SBE37_CDM')
self.process_definitions = {}
ingestion_worker_definition = ProcessDefinition(name='ingestion worker')
ingestion_worker_definition.executable = {
'module':'ion.processes.data.ingestion.science_granule_ingestion_worker',
'class' :'ScienceGranuleIngestionWorker'
}
process_definition_id = self.process_dispatcher.create_process_definition(process_definition=ingestion_worker_definition)
self.process_definitions['ingestion_worker'] = process_definition_id
#------------------------------------------------------------------------------------------------
# First launch the ingestors
#------------------------------------------------------------------------------------------------
self.exchange_space = 'science_granule_ingestion'
self.exchange_point = 'science_data'
config = DotDict()
config.process.datastore_name = 'datasets'
config.process.queue_name = self.exchange_space
self.process_dispatcher.schedule_process(self.process_definitions['ingestion_worker'],configuration=config)
def get_datastore(self, dataset_id):
dataset = self.dataset_management.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
@unittest.skip('OBE')
def test_get_last_update(self):
# Construct temporal and spatial Coordinate Reference System objects
tcrs = CRS([AxisTypeEnum.TIME])
scrs = CRS([AxisTypeEnum.LON, AxisTypeEnum.LAT])
# Construct temporal and spatial Domain objects
tdom = GridDomain(GridShape('temporal', [0]), tcrs, MutabilityEnum.EXTENSIBLE) # 1d (timeline)
sdom = GridDomain(GridShape('spatial', [0]), scrs, MutabilityEnum.IMMUTABLE) # 1d spatial topology (station/trajectory)
sdom = sdom.dump()
tdom = tdom.dump()
#@TODO: DO NOT DO THIS, WHEN THIS TEST IS REWRITTEN GET RID OF THIS, IT WILL FAIL, thanks -Luke
parameter_dictionary = get_param_dict('ctd_parsed_param_dict')
parameter_dictionary = parameter_dictionary.dump()
dp_obj = IonObject(RT.DataProduct,
name='DP1',
description='some new dp',
temporal_domain = tdom,
spatial_domain = sdom)
data_product_id = self.dpsc_cli.create_data_product(data_product=dp_obj, stream_definition_id=self.stream_def_id, parameter_dictionary=parameter_dictionary)
stream_ids, garbage = self.rrclient.find_objects(data_product_id, PRED.hasStream, id_only=True)
stream_id = stream_ids[0]
fake_lu = LastUpdate()
fake_lu_doc = self.db._ion_object_to_persistence_dict(fake_lu)
self.db.create_doc(fake_lu_doc, object_id=stream_id)
#------------------------------------------
# Now execute
#------------------------------------------
res = self.dpsc_cli.get_last_update(data_product_id=data_product_id)
self.assertTrue(isinstance(res[stream_id], LastUpdate), 'retrieving documents failed')
def test_create_data_product(self):
#------------------------------------------------------------------------------------------------
# create a stream definition for the data from the ctd simulator
#------------------------------------------------------------------------------------------------
parameter_dictionary_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict')
ctd_stream_def_id = self.pubsubcli.create_stream_definition(name='Simulated CTD data', parameter_dictionary_id=parameter_dictionary_id)
log.debug("Created stream def id %s" % ctd_stream_def_id)
#------------------------------------------------------------------------------------------------
# test creating a new data product w/o a stream definition
#------------------------------------------------------------------------------------------------
log.debug('test_createDataProduct: Creating new data product w/o a stream definition (L4-CI-SA-RQ-308)')
# Generic time-series data domain creation
tdom, sdom = time_series_domain()
dp_obj = IonObject(RT.DataProduct,
name='DP1',
description='some new dp',
temporal_domain = tdom.dump(),
spatial_domain = sdom.dump())
log.debug("Created an IonObject for a data product: %s" % dp_obj)
#------------------------------------------------------------------------------------------------
# Create a set of ParameterContext objects to define the parameters in the coverage, add each to the ParameterDictionary
#------------------------------------------------------------------------------------------------
dp_id = self.dpsc_cli.create_data_product( data_product= dp_obj,
stream_definition_id=ctd_stream_def_id)
dp_obj = self.dpsc_cli.read_data_product(dp_id)
log.debug('new dp_id = %s' % dp_id)
log.debug("test_createDataProduct: Data product info from registry %s (L4-CI-SA-RQ-308)", str(dp_obj))
#------------------------------------------------------------------------------------------------
# test creating a new data product with a stream definition
#------------------------------------------------------------------------------------------------
log.debug('Creating new data product with a stream definition')
dp_obj = IonObject(RT.DataProduct,
name='DP2',
description='some new dp',
temporal_domain = tdom.dump(),
spatial_domain = sdom.dump())
dp_id2 = self.dpsc_cli.create_data_product(dp_obj, ctd_stream_def_id)
log.debug('new dp_id = %s' % dp_id2)
#------------------------------------------------------------------------------------------------
#make sure data product is associated with stream def
#------------------------------------------------------------------------------------------------
streamdefs = []
streams, _ = self.rrclient.find_objects(dp_id2, PRED.hasStream, RT.Stream, True)
for s in streams:
log.debug("Checking stream %s" % s)
sdefs, _ = self.rrclient.find_objects(s, PRED.hasStreamDefinition, RT.StreamDefinition, True)
for sd in sdefs:
log.debug("Checking streamdef %s" % sd)
streamdefs.append(sd)
self.assertIn(ctd_stream_def_id, streamdefs)
# test reading a non-existent data product
log.debug('reading non-existent data product')
with self.assertRaises(NotFound):
dp_obj = self.dpsc_cli.read_data_product('some_fake_id')
# update a data product (tests read also)
log.debug('Updating data product')
# first get the existing dp object
dp_obj = self.dpsc_cli.read_data_product(dp_id)
# now tweak the object
dp_obj.description = 'the very first dp'
# now write the dp back to the registry
update_result = self.dpsc_cli.update_data_product(dp_obj)
# now get the dp back to see if it was updated
dp_obj = self.dpsc_cli.read_data_product(dp_id)
self.assertEquals(dp_obj.description,'the very first dp')
#test extension
extended_product = self.dpsc_cli.get_data_product_extension(dp_id)
self.assertEqual(dp_id, extended_product._id)
self.assertEqual(ComputedValueAvailability.PROVIDED,
extended_product.computed.product_download_size_estimated.status)
self.assertEqual(0, extended_product.computed.product_download_size_estimated.value)
self.assertEqual(ComputedValueAvailability.PROVIDED,
extended_product.computed.parameters.status)
#log.debug("test_create_data_product: parameters %s" % extended_product.computed.parameters.value)
# now 'delete' the data product
log.debug("deleting data product: %s" % dp_id)
self.dpsc_cli.delete_data_product(dp_id)
self.dpsc_cli.force_delete_data_product(dp_id)
# now try to get the deleted dp object
try:
dp_obj = self.dpsc_cli.read_data_product(dp_id)
except NotFound as ex:
pass
else:
self.fail("force deleted data product was found during read")
# Get the events corresponding to the data product
ret = self.unsc.get_recent_events(resource_id=dp_id)
events = ret.value
for event in events:
log.debug("event time: %s" % event.ts_created)
# now try to get the deleted dp object
#todo: the RR should perhaps not return retired data products
# dp_obj = self.dpsc_cli.read_data_product(dp_id)
# now try to delete the already deleted dp object
# log.debug( "deleting non-existing data product")
# self.dpsc_cli.delete_data_product(dp_id)
# Shut down container
#container.stop()
def test_activate_suspend_data_product(self):
#------------------------------------------------------------------------------------------------
# create a stream definition for the data from the ctd simulator
#------------------------------------------------------------------------------------------------
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
ctd_stream_def_id = self.pubsubcli.create_stream_definition(name='Simulated CTD data', parameter_dictionary_id=pdict_id)
log.debug("Created stream def id %s" % ctd_stream_def_id)
#------------------------------------------------------------------------------------------------
# test creating a new data product w/o a stream definition
#------------------------------------------------------------------------------------------------
log.debug('test_createDataProduct: Creating new data product w/o a stream definition (L4-CI-SA-RQ-308)')
# Construct temporal and spatial Coordinate Reference System objects
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
dp_obj = IonObject(RT.DataProduct,
name='DP1',
description='some new dp',
temporal_domain = tdom,
spatial_domain = sdom)
log.debug("Created an IonObject for a data product: %s" % dp_obj)
#------------------------------------------------------------------------------------------------
# Create a set of ParameterContext objects to define the parameters in the coverage, add each to the ParameterDictionary
#------------------------------------------------------------------------------------------------
dp_id = self.dpsc_cli.create_data_product(data_product= dp_obj,
stream_definition_id=ctd_stream_def_id)
dp_obj = self.dpsc_cli.read_data_product(dp_id)
log.debug('new dp_id = %s' % dp_id)
log.debug("test_createDataProduct: Data product info from registry %s (L4-CI-SA-RQ-308)", str(dp_obj))
dataset_ids, _ = self.rrclient.find_objects(subject=dp_id, predicate=PRED.hasDataset, id_only=True)
if not dataset_ids:
raise NotFound("Data Product %s dataset does not exist" % str(dp_id))
self.get_datastore(dataset_ids[0])
#------------------------------------------------------------------------------------------------
# test activate and suspend data product persistence
#------------------------------------------------------------------------------------------------
self.dpsc_cli.activate_data_product_persistence(dp_id)
#------------------------------------------------------------------------------------------------
# test suspend data product persistence
#------------------------------------------------------------------------------------------------
self.dpsc_cli.suspend_data_product_persistence(dp_id)
# pid = self.container.spawn_process(name='dummy_process_for_test',
# module='pyon.ion.process',
# cls='SimpleProcess',
# config={})
# dummy_process = self.container.proc_manager.procs[pid]
self.dpsc_cli.force_delete_data_product(dp_id)
# now try to get the deleted dp object
try:
dp_obj = self.rrclient.read(dp_id)
except NotFound as ex:
pass
else:
self.fail("force_deleted data product was found during read")
class DatasetManagementIntTest(IonIntegrationTestCase):
def setUp(self):
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.resource_registry = ResourceRegistryServiceClient()
self.dataset_management = DatasetManagementServiceClient()
def test_dataset_crud(self):
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
tdom, sdom = time_series_domain()
dataset_id = self.dataset_management.create_dataset(name='ctd_dataset', parameter_dictionary_id=pdict_id, spatial_domain=sdom.dump(), temporal_domain=tdom.dump())
ds_obj = self.dataset_management.read_dataset(dataset_id)
self.assertEquals(ds_obj.name, 'ctd_dataset')
ds_obj.name = 'something different'
self.dataset_management.update_dataset(ds_obj)
self.dataset_management.register_dataset(dataset_id)
ds_obj2 = self.dataset_management.read_dataset(dataset_id)
self.assertEquals(ds_obj.name, ds_obj2.name)
self.assertTrue(ds_obj2.registered)
def test_context_crud(self):
context_ids = self.create_contexts()
context_id = context_ids.pop()
context = DatasetManagementService.get_parameter_context(context_id)
self.assertIsInstance(context, ParameterContext)
self.assertEquals(context.identifier, context_id)
self.dataset_management.delete_parameter_context(context_id)
with self.assertRaises(NotFound):
self.dataset_management.read_parameter_context(context_id)
def test_pfunc_crud(self):
contexts, funcs = self.create_pfuncs()
context_ids = [context_id for ctxt,context_id in contexts.itervalues()]
pdict_id = self.dataset_management.create_parameter_dictionary(name='functional_pdict', parameter_context_ids=context_ids, temporal_context='time')
self.addCleanup(self.dataset_management.delete_parameter_dictionary, pdict_id)
expr, expr_id = funcs['CONDWAT_L1']
func_class = DatasetManagementService.get_parameter_function(expr_id)
self.assertIsInstance(func_class, NumexprFunction)
def test_pdict_crud(self):
context_ids = self.create_contexts()
pdict_res_id = self.dataset_management.create_parameter_dictionary(name='pdict1', parameter_context_ids=context_ids, temporal_context='time')
pdict_contexts = self.dataset_management.read_parameter_contexts(parameter_dictionary_id=pdict_res_id, id_only=True)
pdict = DatasetManagementService.get_parameter_dictionary(pdict_res_id)
self.assertIsInstance(pdict, ParameterDictionary)
self.assertTrue('time_test' in pdict)
self.assertEquals(pdict.identifier, pdict_res_id)
self.assertEquals(set(pdict_contexts), set(context_ids))
self.dataset_management.delete_parameter_dictionary(parameter_dictionary_id=pdict_res_id)
with self.assertRaises(NotFound):
self.dataset_management.read_parameter_dictionary(parameter_dictionary_id=pdict_res_id)
def create_contexts(self):
context_ids = []
cond_ctxt = ParameterContext('conductivity_test', param_type=QuantityType(value_encoding=np.float32))
cond_ctxt.uom = 'unknown'
cond_ctxt.fill_value = 0e0
context_ids.append(self.dataset_management.create_parameter_context(name='conductivity_test', parameter_context=cond_ctxt.dump()))
pres_ctxt = ParameterContext('pressure_test', param_type=QuantityType(value_encoding=np.float32))
pres_ctxt.uom = 'Pascal'
pres_ctxt.fill_value = 0x0
context_ids.append(self.dataset_management.create_parameter_context(name='pressure_test', parameter_context=pres_ctxt.dump()))
sal_ctxt = ParameterContext('salinity_test', param_type=QuantityType(value_encoding=np.float32))
sal_ctxt.uom = 'PSU'
sal_ctxt.fill_value = 0x0
context_ids.append(self.dataset_management.create_parameter_context(name='salinity_test', parameter_context=sal_ctxt.dump()))
temp_ctxt = ParameterContext('temp_test', param_type=QuantityType(value_encoding=np.float32))
temp_ctxt.uom = 'degree_Celsius'
temp_ctxt.fill_value = 0e0
context_ids.append(self.dataset_management.create_parameter_context(name='temp_test', parameter_context=temp_ctxt.dump()))
t_ctxt = ParameterContext('time_test', param_type=QuantityType(value_encoding=np.int64))
t_ctxt.uom = 'seconds since 1970-01-01'
t_ctxt.fill_value = 0x0
context_ids.append(self.dataset_management.create_parameter_context(name='time_test', parameter_context=t_ctxt.dump()))
return context_ids
def create_pfuncs(self):
contexts = {}
funcs = {}
t_ctxt = ParameterContext('TIME', param_type=QuantityType(value_encoding=np.dtype('int64')))
t_ctxt.uom = 'seconds since 01-01-1900'
t_ctxt_id = self.dataset_management.create_parameter_context(name='test_TIME', parameter_context=t_ctxt.dump())
contexts['TIME'] = (t_ctxt, t_ctxt_id)
lat_ctxt = ParameterContext('LAT', param_type=ConstantType(QuantityType(value_encoding=np.dtype('float32'))), fill_value=-9999)
lat_ctxt.axis = AxisTypeEnum.LAT
lat_ctxt.uom = 'degree_north'
lat_ctxt_id = self.dataset_management.create_parameter_context(name='test_LAT', parameter_context=lat_ctxt.dump())
contexts['LAT'] = lat_ctxt, lat_ctxt_id
lon_ctxt = ParameterContext('LON', param_type=ConstantType(QuantityType(value_encoding=np.dtype('float32'))), fill_value=-9999)
lon_ctxt.axis = AxisTypeEnum.LON
lon_ctxt.uom = 'degree_east'
lon_ctxt_id = self.dataset_management.create_parameter_context(name='test_LON', parameter_context=lon_ctxt.dump())
contexts['LON'] = lon_ctxt, lon_ctxt_id
# Independent Parameters
# Temperature - values expected to be the decimal results of conversion from hex
temp_ctxt = ParameterContext('TEMPWAT_L0', param_type=QuantityType(value_encoding=np.dtype('float32')), fill_value=-9999)
temp_ctxt.uom = 'deg_C'
temp_ctxt_id = self.dataset_management.create_parameter_context(name='test_TEMPWAT_L0', parameter_context=temp_ctxt.dump())
contexts['TEMPWAT_L0'] = temp_ctxt, temp_ctxt_id
# Conductivity - values expected to be the decimal results of conversion from hex
cond_ctxt = ParameterContext('CONDWAT_L0', param_type=QuantityType(value_encoding=np.dtype('float32')), fill_value=-9999)
cond_ctxt.uom = 'S m-1'
cond_ctxt_id = self.dataset_management.create_parameter_context(name='test_CONDWAT_L0', parameter_context=cond_ctxt.dump())
contexts['CONDWAT_L0'] = cond_ctxt, cond_ctxt_id
# Pressure - values expected to be the decimal results of conversion from hex
press_ctxt = ParameterContext('PRESWAT_L0', param_type=QuantityType(value_encoding=np.dtype('float32')), fill_value=-9999)
press_ctxt.uom = 'dbar'
press_ctxt_id = self.dataset_management.create_parameter_context(name='test_PRESWAT_L0', parameter_context=press_ctxt.dump())
contexts['PRESWAT_L0'] = press_ctxt, press_ctxt_id
# Dependent Parameters
# TEMPWAT_L1 = (TEMPWAT_L0 / 10000) - 10
tl1_func = '(T / 10000) - 10'
expr = NumexprFunction('TEMPWAT_L1', tl1_func, ['T'])
expr_id = self.dataset_management.create_parameter_function(name='test_TEMPWAT_L1', parameter_function=expr.dump())
funcs['TEMPWAT_L1'] = expr, expr_id
tl1_pmap = {'T': 'TEMPWAT_L0'}
expr.param_map = tl1_pmap
tempL1_ctxt = ParameterContext('TEMPWAT_L1', param_type=ParameterFunctionType(function=expr), variability=VariabilityEnum.TEMPORAL)
tempL1_ctxt.uom = 'deg_C'
tempL1_ctxt_id = self.dataset_management.create_parameter_context(name='test_TEMPWAT_L1', parameter_context=tempL1_ctxt.dump(), parameter_function_id=expr_id)
contexts['TEMPWAT_L1'] = tempL1_ctxt, tempL1_ctxt_id
# CONDWAT_L1 = (CONDWAT_L0 / 100000) - 0.5
cl1_func = '(C / 100000) - 0.5'
expr = NumexprFunction('CONDWAT_L1', cl1_func, ['C'])
expr_id = self.dataset_management.create_parameter_function(name='test_CONDWAT_L1', parameter_function=expr.dump())
funcs['CONDWAT_L1'] = expr, expr_id
cl1_pmap = {'C': 'CONDWAT_L0'}
expr.param_map = cl1_pmap
condL1_ctxt = ParameterContext('CONDWAT_L1', param_type=ParameterFunctionType(function=expr), variability=VariabilityEnum.TEMPORAL)
condL1_ctxt.uom = 'S m-1'
condL1_ctxt_id = self.dataset_management.create_parameter_context(name='test_CONDWAT_L1', parameter_context=condL1_ctxt.dump(), parameter_function_id=expr_id)
contexts['CONDWAT_L1'] = condL1_ctxt, condL1_ctxt_id
# Equation uses p_range, which is a calibration coefficient - Fixing to 679.34040721
# PRESWAT_L1 = (PRESWAT_L0 * p_range / (0.85 * 65536)) - (0.05 * p_range)
pl1_func = '(P * p_range / (0.85 * 65536)) - (0.05 * p_range)'
expr = NumexprFunction('PRESWAT_L1', pl1_func, ['P', 'p_range'])
expr_id = self.dataset_management.create_parameter_function(name='test_PRESWAT_L1', parameter_function=expr.dump())
funcs['PRESWAT_L1'] = expr, expr_id
pl1_pmap = {'P': 'PRESWAT_L0', 'p_range': 679.34040721}
expr.param_map = pl1_pmap
presL1_ctxt = ParameterContext('PRESWAT_L1', param_type=ParameterFunctionType(function=expr), variability=VariabilityEnum.TEMPORAL)
presL1_ctxt.uom = 'S m-1'
presL1_ctxt_id = self.dataset_management.create_parameter_context(name='test_CONDWAT_L1', parameter_context=presL1_ctxt.dump(), parameter_function_id=expr_id)
contexts['PRESWAT_L1'] = presL1_ctxt, presL1_ctxt_id
# Density & practical salinity calucluated using the Gibbs Seawater library - available via python-gsw project:
# https://code.google.com/p/python-gsw/ & http://pypi.python.org/pypi/gsw/3.0.1
# PRACSAL = gsw.SP_from_C((CONDWAT_L1 * 10), TEMPWAT_L1, PRESWAT_L1)
owner = 'gsw'
sal_func = 'SP_from_C'
sal_arglist = ['C', 't', 'p']
expr = PythonFunction('PRACSAL', owner, sal_func, sal_arglist)
expr_id = self.dataset_management.create_parameter_function(name='test_PRACSAL', parameter_function=expr.dump())
funcs['PRACSAL'] = expr, expr_id
# A magic function that may or may not exist actually forms the line below at runtime.
sal_pmap = {'C': NumexprFunction('CONDWAT_L1*10', 'C*10', ['C'], param_map={'C': 'CONDWAT_L1'}), 't': 'TEMPWAT_L1', 'p': 'PRESWAT_L1'}
expr.param_map = sal_pmap
sal_ctxt = ParameterContext('PRACSAL', param_type=ParameterFunctionType(expr), variability=VariabilityEnum.TEMPORAL)
sal_ctxt.uom = 'g kg-1'
sal_ctxt_id = self.dataset_management.create_parameter_context(name='test_PRACSAL', parameter_context=sal_ctxt.dump(), parameter_function_id=expr_id)
contexts['PRACSAL'] = sal_ctxt, sal_ctxt_id
# absolute_salinity = gsw.SA_from_SP(PRACSAL, PRESWAT_L1, longitude, latitude)
# conservative_temperature = gsw.CT_from_t(absolute_salinity, TEMPWAT_L1, PRESWAT_L1)
# DENSITY = gsw.rho(absolute_salinity, conservative_temperature, PRESWAT_L1)
owner = 'gsw'
abs_sal_expr = PythonFunction('abs_sal', owner, 'SA_from_SP', ['PRACSAL', 'PRESWAT_L1', 'LON','LAT'])
cons_temp_expr = PythonFunction('cons_temp', owner, 'CT_from_t', [abs_sal_expr, 'TEMPWAT_L1', 'PRESWAT_L1'])
dens_expr = PythonFunction('DENSITY', owner, 'rho', [abs_sal_expr, cons_temp_expr, 'PRESWAT_L1'])
dens_ctxt = ParameterContext('DENSITY', param_type=ParameterFunctionType(dens_expr), variability=VariabilityEnum.TEMPORAL)
dens_ctxt.uom = 'kg m-3'
dens_ctxt_id = self.dataset_management.create_parameter_context(name='test_DENSITY', parameter_context=dens_ctxt.dump())
contexts['DENSITY'] = dens_ctxt, dens_ctxt_id
return contexts, funcs
def test_verify_contexts(self):
pdict_id = self.dataset_management.read_parameter_dictionary_by_name(name='ctd_parsed_param_dict', id_only=True)
pcontexts = self.dataset_management.read_parameter_contexts(parameter_dictionary_id=pdict_id)
for pcontext in pcontexts:
self.assertTrue('fill_value' in pcontext)
self.assertTrue('reference_urls' in pcontext)
self.assertTrue('internal_name' in pcontext)
self.assertTrue('display_name' in pcontext)
self.assertTrue('standard_name' in pcontext)
self.assertTrue('ooi_short_name' in pcontext)
self.assertTrue('description' in pcontext)
self.assertTrue('precision' in pcontext)
class TestActivateInstrumentIntegration(IonIntegrationTestCase):
def setUp(self):
# Start container
super(TestActivateInstrumentIntegration, self).setUp()
config = DotDict()
config.bootstrap.use_es = True
self._start_container()
self.addCleanup(TestActivateInstrumentIntegration.es_cleanup)
self.container.start_rel_from_url('res/deploy/r2deploy.yml', config)
# Now create client to DataProductManagementService
self.rrclient = ResourceRegistryServiceClient(node=self.container.node)
self.damsclient = DataAcquisitionManagementServiceClient(
node=self.container.node)
self.pubsubcli = PubsubManagementServiceClient(
node=self.container.node)
self.imsclient = InstrumentManagementServiceClient(
node=self.container.node)
self.dpclient = DataProductManagementServiceClient(
node=self.container.node)
self.datasetclient = DatasetManagementServiceClient(
node=self.container.node)
self.processdispatchclient = ProcessDispatcherServiceClient(
node=self.container.node)
self.dataprocessclient = DataProcessManagementServiceClient(
node=self.container.node)
self.dataproductclient = DataProductManagementServiceClient(
node=self.container.node)
self.dataretrieverclient = DataRetrieverServiceClient(
node=self.container.node)
self.dataset_management = DatasetManagementServiceClient()
self.usernotificationclient = UserNotificationServiceClient()
#setup listerner vars
self._data_greenlets = []
self._no_samples = None
self._samples_received = []
self.event_publisher = EventPublisher()
@staticmethod
def es_cleanup():
es_host = CFG.get_safe('server.elasticsearch.host', 'localhost')
es_port = CFG.get_safe('server.elasticsearch.port', '9200')
es = ep.ElasticSearch(host=es_host, port=es_port, timeout=10)
indexes = STD_INDEXES.keys()
indexes.append('%s_resources_index' % get_sys_name().lower())
indexes.append('%s_events_index' % get_sys_name().lower())
for index in indexes:
IndexManagementService._es_call(es.river_couchdb_delete, index)
IndexManagementService._es_call(es.index_delete, index)
def create_logger(self, name, stream_id=''):
# logger process
producer_definition = ProcessDefinition(name=name + '_logger')
producer_definition.executable = {
'module': 'ion.processes.data.stream_granule_logger',
'class': 'StreamGranuleLogger'
}
logger_procdef_id = self.processdispatchclient.create_process_definition(
process_definition=producer_definition)
configuration = {
'process': {
'stream_id': stream_id,
}
}
pid = self.processdispatchclient.schedule_process(
process_definition_id=logger_procdef_id,
configuration=configuration)
return pid
def _create_notification(self,
user_name='',
instrument_id='',
product_id=''):
#--------------------------------------------------------------------------------------
# Make notification request objects
#--------------------------------------------------------------------------------------
notification_request_1 = NotificationRequest(
name='notification_1',
origin=instrument_id,
origin_type="instrument",
event_type='ResourceLifecycleEvent')
notification_request_2 = NotificationRequest(
name='notification_2',
origin=product_id,
origin_type="data product",
event_type='DetectionEvent')
#--------------------------------------------------------------------------------------
# Create a user and get the user_id
#--------------------------------------------------------------------------------------
user = UserInfo()
user.name = user_name
user.contact.email = '*****@*****.**' % user_name
user_id, _ = self.rrclient.create(user)
#--------------------------------------------------------------------------------------
# Create notification
#--------------------------------------------------------------------------------------
self.usernotificationclient.create_notification(
notification=notification_request_1, user_id=user_id)
self.usernotificationclient.create_notification(
notification=notification_request_2, user_id=user_id)
log.debug(
"test_activateInstrumentSample: create_user_notifications user_id %s",
str(user_id))
return user_id
def get_datastore(self, dataset_id):
dataset = self.datasetclient.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(
datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def _check_computed_attributes_of_extended_instrument(
self, expected_instrument_device_id='', extended_instrument=None):
# Verify that computed attributes exist for the extended instrument
self.assertIsInstance(extended_instrument.computed.firmware_version,
ComputedFloatValue)
self.assertIsInstance(
extended_instrument.computed.last_data_received_datetime,
ComputedFloatValue)
self.assertIsInstance(
extended_instrument.computed.last_calibration_datetime,
ComputedFloatValue)
self.assertIsInstance(extended_instrument.computed.uptime,
ComputedStringValue)
self.assertIsInstance(
extended_instrument.computed.power_status_roll_up,
ComputedIntValue)
self.assertIsInstance(
extended_instrument.computed.communications_status_roll_up,
ComputedIntValue)
self.assertIsInstance(extended_instrument.computed.data_status_roll_up,
ComputedIntValue)
self.assertIsInstance(
extended_instrument.computed.location_status_roll_up,
ComputedIntValue)
# the following assert will not work without elasticsearch.
#self.assertEqual( 1, len(extended_instrument.computed.user_notification_requests.value) )
self.assertEqual(
extended_instrument.computed.communications_status_roll_up.value,
StatusType.STATUS_WARNING)
self.assertEqual(
extended_instrument.computed.data_status_roll_up.value,
StatusType.STATUS_OK)
self.assertEqual(
extended_instrument.computed.power_status_roll_up.value,
StatusType.STATUS_WARNING)
# Verify the computed attribute for user notification requests
self.assertEqual(
1,
len(extended_instrument.computed.user_notification_requests.value))
notifications = extended_instrument.computed.user_notification_requests.value
notification = notifications[0]
self.assertEqual(notification.origin, expected_instrument_device_id)
self.assertEqual(notification.origin_type, "instrument")
self.assertEqual(notification.event_type, 'ResourceLifecycleEvent')
def _check_computed_attributes_of_extended_product(
self, expected_data_product_id='', extended_data_product=None):
self.assertEqual(expected_data_product_id, extended_data_product._id)
log.debug("extended_data_product.computed: %s",
extended_data_product.computed)
# Verify that computed attributes exist for the extended instrument
self.assertIsInstance(
extended_data_product.computed.product_download_size_estimated,
ComputedIntValue)
self.assertIsInstance(
extended_data_product.computed.number_active_subscriptions,
ComputedIntValue)
self.assertIsInstance(extended_data_product.computed.data_url,
ComputedStringValue)
self.assertIsInstance(extended_data_product.computed.stored_data_size,
ComputedIntValue)
self.assertIsInstance(extended_data_product.computed.recent_granules,
ComputedDictValue)
self.assertIsInstance(extended_data_product.computed.parameters,
ComputedListValue)
self.assertIsInstance(extended_data_product.computed.recent_events,
ComputedEventListValue)
self.assertIsInstance(extended_data_product.computed.provenance,
ComputedDictValue)
self.assertIsInstance(
extended_data_product.computed.user_notification_requests,
ComputedListValue)
self.assertIsInstance(
extended_data_product.computed.active_user_subscriptions,
ComputedListValue)
self.assertIsInstance(
extended_data_product.computed.past_user_subscriptions,
ComputedListValue)
self.assertIsInstance(extended_data_product.computed.last_granule,
ComputedDictValue)
self.assertIsInstance(extended_data_product.computed.is_persisted,
ComputedIntValue)
self.assertIsInstance(
extended_data_product.computed.data_contents_updated,
ComputedStringValue)
self.assertIsInstance(extended_data_product.computed.data_datetime,
ComputedListValue)
# exact text here keeps changing to fit UI capabilities. keep assertion general...
self.assertTrue('ok' in extended_data_product.computed.last_granule.
value['quality_flag'])
self.assertEqual(
2, len(extended_data_product.computed.data_datetime.value))
notifications = extended_data_product.computed.user_notification_requests.value
notification = notifications[0]
self.assertEqual(notification.origin, expected_data_product_id)
self.assertEqual(notification.origin_type, "data product")
self.assertEqual(notification.event_type, 'DetectionEvent')
@attr('LOCOINT')
@unittest.skipIf(not use_es, 'No ElasticSearch')
@unittest.skipIf(os.getenv('CEI_LAUNCH_TEST', False),
'Skip test while in CEI LAUNCH mode')
@patch.dict(CFG, {'endpoint': {'receive': {'timeout': 60}}})
def test_activateInstrumentSample(self):
self.loggerpids = []
# Create InstrumentModel
instModel_obj = IonObject(RT.InstrumentModel,
name='SBE37IMModel',
description="SBE37IMModel")
instModel_id = self.imsclient.create_instrument_model(instModel_obj)
log.debug('new InstrumentModel id = %s ', instModel_id)
#Create stream alarms
"""
test_two_sided_interval
Test interval alarm and alarm event publishing for a closed
inteval.
"""
# kwargs = {
# 'name' : 'test_sim_warning',
# 'stream_name' : 'parsed',
# 'value_id' : 'temp',
# 'message' : 'Temperature is above test range of 5.0.',
# 'type' : StreamAlarmType.WARNING,
# 'upper_bound' : 5.0,
# 'upper_rel_op' : '<'
# }
kwargs = {
'name': 'temperature_warning_interval',
'stream_name': 'parsed',
'value_id': 'temp',
'message':
'Temperature is below the normal range of 50.0 and above.',
'type': StreamAlarmType.WARNING,
'lower_bound': 50.0,
'lower_rel_op': '<'
}
# Create alarm object.
alarm = {}
alarm['type'] = 'IntervalAlarmDef'
alarm['kwargs'] = kwargs
raw_config = StreamConfiguration(
stream_name='raw',
parameter_dictionary_name='ctd_raw_param_dict',
records_per_granule=2,
granule_publish_rate=5)
parsed_config = StreamConfiguration(
stream_name='parsed',
parameter_dictionary_name='ctd_parsed_param_dict',
records_per_granule=2,
granule_publish_rate=5,
alarms=[alarm])
# Create InstrumentAgent
instAgent_obj = IonObject(
RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
driver_uri=
"http://sddevrepo.oceanobservatories.org/releases/seabird_sbe37smb_ooicore-0.0.1a-py2.7.egg",
stream_configurations=[raw_config, parsed_config])
instAgent_id = self.imsclient.create_instrument_agent(instAgent_obj)
log.debug('new InstrumentAgent id = %s', instAgent_id)
self.imsclient.assign_instrument_model_to_instrument_agent(
instModel_id, instAgent_id)
# Create InstrumentDevice
log.debug(
'test_activateInstrumentSample: Create instrument resource to represent the SBE37 (SA Req: L4-CI-SA-RQ-241) '
)
instDevice_obj = IonObject(RT.InstrumentDevice,
name='SBE37IMDevice',
description="SBE37IMDevice",
serial_number="12345")
instDevice_id = self.imsclient.create_instrument_device(
instrument_device=instDevice_obj)
self.imsclient.assign_instrument_model_to_instrument_device(
instModel_id, instDevice_id)
log.debug(
"test_activateInstrumentSample: new InstrumentDevice id = %s (SA Req: L4-CI-SA-RQ-241) ",
instDevice_id)
port_agent_config = {
'device_addr': CFG.device.sbe37.host,
'device_port': CFG.device.sbe37.port,
'process_type': PortAgentProcessType.UNIX,
'binary_path': "port_agent",
'port_agent_addr': 'localhost',
'command_port': CFG.device.sbe37.port_agent_cmd_port,
'data_port': CFG.device.sbe37.port_agent_data_port,
'log_level': 5,
'type': PortAgentType.ETHERNET
}
instAgentInstance_obj = IonObject(RT.InstrumentAgentInstance,
name='SBE37IMAgentInstance',
description="SBE37IMAgentInstance",
port_agent_config=port_agent_config)
instAgentInstance_id = self.imsclient.create_instrument_agent_instance(
instAgentInstance_obj, instAgent_id, instDevice_id)
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
parsed_pdict_id = self.dataset_management.read_parameter_dictionary_by_name(
'ctd_parsed_param_dict', id_only=True)
parsed_stream_def_id = self.pubsubcli.create_stream_definition(
name='parsed', parameter_dictionary_id=parsed_pdict_id)
raw_pdict_id = self.dataset_management.read_parameter_dictionary_by_name(
'ctd_raw_param_dict', id_only=True)
raw_stream_def_id = self.pubsubcli.create_stream_definition(
name='raw', parameter_dictionary_id=raw_pdict_id)
#-------------------------------
# Create Raw and Parsed Data Products for the device
#-------------------------------
dp_obj = IonObject(RT.DataProduct,
name='the parsed data',
description='ctd stream test',
temporal_domain=tdom,
spatial_domain=sdom)
data_product_id1 = self.dpclient.create_data_product(
data_product=dp_obj, stream_definition_id=parsed_stream_def_id)
log.debug('new dp_id = %s', data_product_id1)
self.dpclient.activate_data_product_persistence(
data_product_id=data_product_id1)
self.damsclient.assign_data_product(input_resource_id=instDevice_id,
data_product_id=data_product_id1)
# Retrieve the id of the OUTPUT stream from the out Data Product
stream_ids, _ = self.rrclient.find_objects(data_product_id1,
PRED.hasStream, None, True)
log.debug('Data product streams1 = %s', stream_ids)
# Retrieve the id of the OUTPUT stream from the out Data Product
dataset_ids, _ = self.rrclient.find_objects(data_product_id1,
PRED.hasDataset,
RT.Dataset, True)
log.debug('Data set for data_product_id1 = %s', dataset_ids[0])
self.parsed_dataset = dataset_ids[0]
pid = self.create_logger('ctd_parsed', stream_ids[0])
self.loggerpids.append(pid)
dp_obj = IonObject(RT.DataProduct,
name='the raw data',
description='raw stream test',
temporal_domain=tdom,
spatial_domain=sdom)
data_product_id2 = self.dpclient.create_data_product(
data_product=dp_obj, stream_definition_id=raw_stream_def_id)
log.debug('new dp_id = %s', data_product_id2)
self.damsclient.assign_data_product(input_resource_id=instDevice_id,
data_product_id=data_product_id2)
self.dpclient.activate_data_product_persistence(
data_product_id=data_product_id2)
# setup notifications for the device and parsed data product
user_id_1 = self._create_notification(user_name='user_1',
instrument_id=instDevice_id,
product_id=data_product_id1)
#---------- Create notifications for another user and verify that we see different computed subscriptions for the two users ---------
user_id_2 = self._create_notification(user_name='user_2',
instrument_id=instDevice_id,
product_id=data_product_id2)
# Retrieve the id of the OUTPUT stream from the out Data Product
stream_ids, _ = self.rrclient.find_objects(data_product_id2,
PRED.hasStream, None, True)
log.debug('Data product streams2 = %s', str(stream_ids))
# Retrieve the id of the OUTPUT stream from the out Data Product
dataset_ids, _ = self.rrclient.find_objects(data_product_id2,
PRED.hasDataset,
RT.Dataset, True)
log.debug('Data set for data_product_id2 = %s', dataset_ids[0])
self.raw_dataset = dataset_ids[0]
#elastic search debug
es_indexes, _ = self.container.resource_registry.find_resources(
restype='ElasticSearchIndex')
log.debug('ElasticSearch indexes: %s', [i.name for i in es_indexes])
log.debug('Bootstrap %s', CFG.bootstrap.use_es)
def start_instrument_agent():
self.imsclient.start_instrument_agent_instance(
instrument_agent_instance_id=instAgentInstance_id)
gevent.joinall([gevent.spawn(start_instrument_agent)])
#setup a subscriber to alarm events from the device
self._events_received = []
self._event_count = 0
self._samples_out_of_range = 0
self._samples_complete = False
self._async_sample_result = AsyncResult()
def consume_event(*args, **kwargs):
log.debug(
'TestActivateInstrument recieved ION event: args=%s, kwargs=%s, event=%s.',
str(args), str(kwargs), str(args[0]))
self._events_received.append(args[0])
self._event_count = len(self._events_received)
self._async_sample_result.set()
self._event_subscriber = EventSubscriber(
event_type=
'StreamWarningAlarmEvent', #'StreamWarningAlarmEvent', # StreamAlarmEvent
callback=consume_event,
origin=instDevice_id)
self._event_subscriber.start()
#cleanup
self.addCleanup(self.imsclient.stop_instrument_agent_instance,
instrument_agent_instance_id=instAgentInstance_id)
def stop_subscriber():
self._event_subscriber.stop()
self._event_subscriber = None
self.addCleanup(stop_subscriber)
#wait for start
inst_agent_instance_obj = self.imsclient.read_instrument_agent_instance(
instAgentInstance_id)
gate = ProcessStateGate(self.processdispatchclient.read_process,
inst_agent_instance_obj.agent_process_id,
ProcessStateEnum.RUNNING)
self.assertTrue(
gate. await (30),
"The instrument agent instance (%s) did not spawn in 30 seconds" %
inst_agent_instance_obj.agent_process_id)
log.debug('Instrument agent instance obj: = %s',
str(inst_agent_instance_obj))
# Start a resource agent client to talk with the instrument agent.
self._ia_client = ResourceAgentClient(
instDevice_id,
to_name=inst_agent_instance_obj.agent_process_id,
process=FakeProcess())
log.debug("test_activateInstrumentSample: got ia client %s",
str(self._ia_client))
cmd = AgentCommand(command=ResourceAgentEvent.INITIALIZE)
retval = self._ia_client.execute_agent(cmd)
log.debug("test_activateInstrumentSample: initialize %s", str(retval))
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.INACTIVE)
log.debug("(L4-CI-SA-RQ-334): Sending go_active command ")
cmd = AgentCommand(command=ResourceAgentEvent.GO_ACTIVE)
reply = self._ia_client.execute_agent(cmd)
log.debug("test_activateInstrument: return value from go_active %s",
str(reply))
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.IDLE)
cmd = AgentCommand(command=ResourceAgentEvent.GET_RESOURCE_STATE)
retval = self._ia_client.execute_agent(cmd)
state = retval.result
log.debug(
"(L4-CI-SA-RQ-334): current state after sending go_active command %s",
str(state))
cmd = AgentCommand(command=ResourceAgentEvent.RUN)
reply = self._ia_client.execute_agent(cmd)
log.debug("test_activateInstrumentSample: run %s", str(reply))
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.COMMAND)
cmd = AgentCommand(command=ResourceAgentEvent.PAUSE)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.STOPPED)
cmd = AgentCommand(command=ResourceAgentEvent.RESUME)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.COMMAND)
cmd = AgentCommand(command=ResourceAgentEvent.CLEAR)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.IDLE)
cmd = AgentCommand(command=ResourceAgentEvent.RUN)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.COMMAND)
cmd = AgentCommand(command=SBE37ProtocolEvent.ACQUIRE_SAMPLE)
for i in xrange(10):
retval = self._ia_client.execute_resource(cmd)
log.debug("test_activateInstrumentSample: return from sample %s",
str(retval))
log.debug("test_activateInstrumentSample: calling reset ")
cmd = AgentCommand(command=ResourceAgentEvent.RESET)
reply = self._ia_client.execute_agent(cmd)
log.debug("test_activateInstrumentSample: return from reset %s",
str(reply))
self._samples_complete = True
#--------------------------------------------------------------------------------
# Now get the data in one chunk using an RPC Call to start_retreive
#--------------------------------------------------------------------------------
replay_data = self.dataretrieverclient.retrieve(self.parsed_dataset)
self.assertIsInstance(replay_data, Granule)
rdt = RecordDictionaryTool.load_from_granule(replay_data)
log.debug("test_activateInstrumentSample: RDT parsed: %s",
str(rdt.pretty_print()))
temp_vals = rdt['temp']
self.assertEquals(len(temp_vals), 10)
log.debug("test_activateInstrumentSample: all temp_vals: %s",
temp_vals)
#out_of_range_temp_vals = [i for i in temp_vals if i > 5]
out_of_range_temp_vals = [i for i in temp_vals if i < 50.0]
log.debug("test_activateInstrumentSample: Out_of_range_temp_vals: %s",
out_of_range_temp_vals)
self._samples_out_of_range = len(out_of_range_temp_vals)
# if no bad values were produced, then do not wait for an event
if self._samples_out_of_range == 0:
self._async_sample_result.set()
log.debug("test_activateInstrumentSample: _events_received: %s",
self._events_received)
log.debug("test_activateInstrumentSample: _event_count: %s",
self._event_count)
self._async_sample_result.get(timeout=CFG.endpoint.receive.timeout)
replay_data = self.dataretrieverclient.retrieve(self.raw_dataset)
self.assertIsInstance(replay_data, Granule)
rdt = RecordDictionaryTool.load_from_granule(replay_data)
log.debug("RDT raw: %s", str(rdt.pretty_print()))
raw_vals = rdt['raw']
self.assertEquals(len(raw_vals), 10)
log.debug("l4-ci-sa-rq-138")
"""
Physical resource control shall be subject to policy
Instrument management control capabilities shall be subject to policy
The actor accessing the control capabilities must be authorized to send commands.
note from maurice 2012-05-18: Talk to tim M to verify that this is policy. If it is then talk with Stephen to
get an example of a policy test and use that to create a test stub that will be
completed when we have instrument policies.
Tim M: The "actor", aka observatory operator, will access the instrument through ION.
"""
#--------------------------------------------------------------------------------
# Get the extended data product to see if it contains the granules
#--------------------------------------------------------------------------------
extended_product = self.dpclient.get_data_product_extension(
data_product_id=data_product_id1, user_id=user_id_1)
def poller(extended_product):
return len(extended_product.computed.user_notification_requests.
value) == 1
poll(poller, extended_product, timeout=30)
self._check_computed_attributes_of_extended_product(
expected_data_product_id=data_product_id1,
extended_data_product=extended_product)
#--------------------------------------------------------------------------------
#put some events into the eventsdb to test - this should set the comms and data status to WARNING
#--------------------------------------------------------------------------------
t = get_ion_ts()
self.event_publisher.publish_event(ts_created=t,
event_type='DeviceStatusEvent',
origin=instDevice_id,
state=DeviceStatusType.OUT_OF_RANGE,
values=[200])
self.event_publisher.publish_event(
ts_created=t,
event_type='DeviceCommsEvent',
origin=instDevice_id,
state=DeviceCommsType.DATA_DELIVERY_INTERRUPTION,
lapse_interval_seconds=20)
#--------------------------------------------------------------------------------
# Get the extended instrument
#--------------------------------------------------------------------------------
extended_instrument = self.imsclient.get_instrument_device_extension(
instrument_device_id=instDevice_id, user_id=user_id_1)
self._check_computed_attributes_of_extended_instrument(
expected_instrument_device_id=instDevice_id,
extended_instrument=extended_instrument)
#--------------------------------------------------------------------------------
# For the second user, check the extended data product and the extended intrument
#--------------------------------------------------------------------------------
extended_product = self.dpclient.get_data_product_extension(
data_product_id=data_product_id2, user_id=user_id_2)
self._check_computed_attributes_of_extended_product(
expected_data_product_id=data_product_id2,
extended_data_product=extended_product)
#---------- Put some events into the eventsdb to test - this should set the comms and data status to WARNING ---------
t = get_ion_ts()
self.event_publisher.publish_event(ts_created=t,
event_type='DeviceStatusEvent',
origin=instDevice_id,
state=DeviceStatusType.OUT_OF_RANGE,
values=[200])
self.event_publisher.publish_event(
ts_created=t,
event_type='DeviceCommsEvent',
origin=instDevice_id,
state=DeviceCommsType.DATA_DELIVERY_INTERRUPTION,
lapse_interval_seconds=20)
#--------------------------------------------------------------------------------
# Get the extended instrument
#--------------------------------------------------------------------------------
extended_instrument = self.imsclient.get_instrument_device_extension(
instrument_device_id=instDevice_id, user_id=user_id_2)
self._check_computed_attributes_of_extended_instrument(
expected_instrument_device_id=instDevice_id,
extended_instrument=extended_instrument)
#--------------------------------------------------------------------------------
# Deactivate loggers
#--------------------------------------------------------------------------------
for pid in self.loggerpids:
self.processdispatchclient.cancel_process(pid)
self.dpclient.delete_data_product(data_product_id1)
self.dpclient.delete_data_product(data_product_id2)
class TestActivateInstrumentIntegration(IonIntegrationTestCase):
def setUp(self):
# Start container
super(TestActivateInstrumentIntegration, self).setUp()
config = DotDict()
config.bootstrap.use_es = True
self._start_container()
self.addCleanup(TestActivateInstrumentIntegration.es_cleanup)
self.container.start_rel_from_url('res/deploy/r2deploy.yml', config)
# Now create client to DataProductManagementService
self.rrclient = ResourceRegistryServiceClient(node=self.container.node)
self.damsclient = DataAcquisitionManagementServiceClient(node=self.container.node)
self.pubsubcli = PubsubManagementServiceClient(node=self.container.node)
self.imsclient = InstrumentManagementServiceClient(node=self.container.node)
self.dpclient = DataProductManagementServiceClient(node=self.container.node)
self.datasetclient = DatasetManagementServiceClient(node=self.container.node)
self.processdispatchclient = ProcessDispatcherServiceClient(node=self.container.node)
self.dataprocessclient = DataProcessManagementServiceClient(node=self.container.node)
self.dataproductclient = DataProductManagementServiceClient(node=self.container.node)
self.dataretrieverclient = DataRetrieverServiceClient(node=self.container.node)
self.dataset_management = DatasetManagementServiceClient()
self.usernotificationclient = UserNotificationServiceClient()
#setup listerner vars
self._data_greenlets = []
self._no_samples = None
self._samples_received = []
self.event_publisher = EventPublisher()
@staticmethod
def es_cleanup():
es_host = CFG.get_safe('server.elasticsearch.host', 'localhost')
es_port = CFG.get_safe('server.elasticsearch.port', '9200')
es = ep.ElasticSearch(
host=es_host,
port=es_port,
timeout=10
)
indexes = STD_INDEXES.keys()
indexes.append('%s_resources_index' % get_sys_name().lower())
indexes.append('%s_events_index' % get_sys_name().lower())
for index in indexes:
IndexManagementService._es_call(es.river_couchdb_delete,index)
IndexManagementService._es_call(es.index_delete,index)
def create_logger(self, name, stream_id=''):
# logger process
producer_definition = ProcessDefinition(name=name+'_logger')
producer_definition.executable = {
'module':'ion.processes.data.stream_granule_logger',
'class':'StreamGranuleLogger'
}
logger_procdef_id = self.processdispatchclient.create_process_definition(process_definition=producer_definition)
configuration = {
'process':{
'stream_id':stream_id,
}
}
pid = self.processdispatchclient.schedule_process(process_definition_id=logger_procdef_id,
configuration=configuration)
return pid
def _create_notification(self, user_name = '', instrument_id='', product_id=''):
#--------------------------------------------------------------------------------------
# Make notification request objects
#--------------------------------------------------------------------------------------
notification_request_1 = NotificationRequest( name= 'notification_1',
origin=instrument_id,
origin_type="instrument",
event_type='ResourceLifecycleEvent')
notification_request_2 = NotificationRequest( name='notification_2',
origin=product_id,
origin_type="data product",
event_type='DetectionEvent')
#--------------------------------------------------------------------------------------
# Create a user and get the user_id
#--------------------------------------------------------------------------------------
user = UserInfo()
user.name = user_name
user.contact.email = '*****@*****.**' % user_name
user_id, _ = self.rrclient.create(user)
#--------------------------------------------------------------------------------------
# Create notification
#--------------------------------------------------------------------------------------
self.usernotificationclient.create_notification(notification=notification_request_1, user_id=user_id)
self.usernotificationclient.create_notification(notification=notification_request_2, user_id=user_id)
log.debug( "test_activateInstrumentSample: create_user_notifications user_id %s", str(user_id) )
return user_id
def get_datastore(self, dataset_id):
dataset = self.datasetclient.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def _check_computed_attributes_of_extended_instrument(self, expected_instrument_device_id = '',extended_instrument = None):
# Verify that computed attributes exist for the extended instrument
self.assertIsInstance(extended_instrument.computed.firmware_version, ComputedFloatValue)
self.assertIsInstance(extended_instrument.computed.last_data_received_datetime, ComputedFloatValue)
self.assertIsInstance(extended_instrument.computed.last_calibration_datetime, ComputedFloatValue)
self.assertIsInstance(extended_instrument.computed.uptime, ComputedStringValue)
self.assertIsInstance(extended_instrument.computed.power_status_roll_up, ComputedIntValue)
self.assertIsInstance(extended_instrument.computed.communications_status_roll_up, ComputedIntValue)
self.assertIsInstance(extended_instrument.computed.data_status_roll_up, ComputedIntValue)
self.assertIsInstance(extended_instrument.computed.location_status_roll_up, ComputedIntValue)
# the following assert will not work without elasticsearch.
#self.assertEqual( 1, len(extended_instrument.computed.user_notification_requests.value) )
self.assertEqual(extended_instrument.computed.communications_status_roll_up.value, StatusType.STATUS_WARNING)
self.assertEqual(extended_instrument.computed.data_status_roll_up.value, StatusType.STATUS_OK)
self.assertEqual(extended_instrument.computed.power_status_roll_up.value, StatusType.STATUS_WARNING)
# Verify the computed attribute for user notification requests
self.assertEqual( 1, len(extended_instrument.computed.user_notification_requests.value) )
notifications = extended_instrument.computed.user_notification_requests.value
notification = notifications[0]
self.assertEqual(notification.origin, expected_instrument_device_id)
self.assertEqual(notification.origin_type, "instrument")
self.assertEqual(notification.event_type, 'ResourceLifecycleEvent')
def _check_computed_attributes_of_extended_product(self, expected_data_product_id = '', extended_data_product = None):
self.assertEqual(expected_data_product_id, extended_data_product._id)
log.debug("extended_data_product.computed: %s", extended_data_product.computed)
# Verify that computed attributes exist for the extended instrument
self.assertIsInstance(extended_data_product.computed.product_download_size_estimated, ComputedIntValue)
self.assertIsInstance(extended_data_product.computed.number_active_subscriptions, ComputedIntValue)
self.assertIsInstance(extended_data_product.computed.data_url, ComputedStringValue)
self.assertIsInstance(extended_data_product.computed.stored_data_size, ComputedIntValue)
self.assertIsInstance(extended_data_product.computed.recent_granules, ComputedDictValue)
self.assertIsInstance(extended_data_product.computed.parameters, ComputedListValue)
self.assertIsInstance(extended_data_product.computed.recent_events, ComputedEventListValue)
self.assertIsInstance(extended_data_product.computed.provenance, ComputedDictValue)
self.assertIsInstance(extended_data_product.computed.user_notification_requests, ComputedListValue)
self.assertIsInstance(extended_data_product.computed.active_user_subscriptions, ComputedListValue)
self.assertIsInstance(extended_data_product.computed.past_user_subscriptions, ComputedListValue)
self.assertIsInstance(extended_data_product.computed.last_granule, ComputedDictValue)
self.assertIsInstance(extended_data_product.computed.is_persisted, ComputedIntValue)
self.assertIsInstance(extended_data_product.computed.data_contents_updated, ComputedStringValue)
self.assertIsInstance(extended_data_product.computed.data_datetime, ComputedListValue)
# exact text here keeps changing to fit UI capabilities. keep assertion general...
self.assertTrue( 'ok' in extended_data_product.computed.last_granule.value['quality_flag'] )
self.assertEqual( 2, len(extended_data_product.computed.data_datetime.value) )
notifications = extended_data_product.computed.user_notification_requests.value
notification = notifications[0]
self.assertEqual(notification.origin, expected_data_product_id)
self.assertEqual(notification.origin_type, "data product")
self.assertEqual(notification.event_type, 'DetectionEvent')
@attr('LOCOINT')
@unittest.skipIf(not use_es, 'No ElasticSearch')
@unittest.skipIf(os.getenv('CEI_LAUNCH_TEST', False), 'Skip test while in CEI LAUNCH mode')
@patch.dict(CFG, {'endpoint':{'receive':{'timeout': 60}}})
def test_activateInstrumentSample(self):
self.loggerpids = []
# Create InstrumentModel
instModel_obj = IonObject(RT.InstrumentModel,
name='SBE37IMModel',
description="SBE37IMModel")
instModel_id = self.imsclient.create_instrument_model(instModel_obj)
log.debug( 'new InstrumentModel id = %s ', instModel_id)
#Create stream alarms
"""
test_two_sided_interval
Test interval alarm and alarm event publishing for a closed
inteval.
"""
# kwargs = {
# 'name' : 'test_sim_warning',
# 'stream_name' : 'parsed',
# 'value_id' : 'temp',
# 'message' : 'Temperature is above test range of 5.0.',
# 'type' : StreamAlarmType.WARNING,
# 'upper_bound' : 5.0,
# 'upper_rel_op' : '<'
# }
kwargs = {
'name' : 'temperature_warning_interval',
'stream_name' : 'parsed',
'value_id' : 'temp',
'message' : 'Temperature is below the normal range of 50.0 and above.',
'type' : StreamAlarmType.WARNING,
'lower_bound' : 50.0,
'lower_rel_op' : '<'
}
# Create alarm object.
alarm = {}
alarm['type'] = 'IntervalAlarmDef'
alarm['kwargs'] = kwargs
raw_config = StreamConfiguration(stream_name='raw', parameter_dictionary_name='ctd_raw_param_dict', records_per_granule=2, granule_publish_rate=5 )
parsed_config = StreamConfiguration(stream_name='parsed', parameter_dictionary_name='ctd_parsed_param_dict', records_per_granule=2, granule_publish_rate=5, alarms=[alarm] )
# Create InstrumentAgent
instAgent_obj = IonObject(RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
driver_uri="http://sddevrepo.oceanobservatories.org/releases/seabird_sbe37smb_ooicore-0.0.1a-py2.7.egg",
stream_configurations = [raw_config, parsed_config])
instAgent_id = self.imsclient.create_instrument_agent(instAgent_obj)
log.debug('new InstrumentAgent id = %s', instAgent_id)
self.imsclient.assign_instrument_model_to_instrument_agent(instModel_id, instAgent_id)
# Create InstrumentDevice
log.debug('test_activateInstrumentSample: Create instrument resource to represent the SBE37 (SA Req: L4-CI-SA-RQ-241) ')
instDevice_obj = IonObject(RT.InstrumentDevice,
name='SBE37IMDevice',
description="SBE37IMDevice",
serial_number="12345" )
instDevice_id = self.imsclient.create_instrument_device(instrument_device=instDevice_obj)
self.imsclient.assign_instrument_model_to_instrument_device(instModel_id, instDevice_id)
log.debug("test_activateInstrumentSample: new InstrumentDevice id = %s (SA Req: L4-CI-SA-RQ-241) " , instDevice_id)
port_agent_config = {
'device_addr': CFG.device.sbe37.host,
'device_port': CFG.device.sbe37.port,
'process_type': PortAgentProcessType.UNIX,
'binary_path': "port_agent",
'port_agent_addr': 'localhost',
'command_port': CFG.device.sbe37.port_agent_cmd_port,
'data_port': CFG.device.sbe37.port_agent_data_port,
'log_level': 5,
'type': PortAgentType.ETHERNET
}
instAgentInstance_obj = IonObject(RT.InstrumentAgentInstance, name='SBE37IMAgentInstance',
description="SBE37IMAgentInstance",
port_agent_config = port_agent_config)
instAgentInstance_id = self.imsclient.create_instrument_agent_instance(instAgentInstance_obj,
instAgent_id,
instDevice_id)
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
parsed_pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
parsed_stream_def_id = self.pubsubcli.create_stream_definition(name='parsed', parameter_dictionary_id=parsed_pdict_id)
raw_pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_raw_param_dict', id_only=True)
raw_stream_def_id = self.pubsubcli.create_stream_definition(name='raw', parameter_dictionary_id=raw_pdict_id)
#-------------------------------
# Create Raw and Parsed Data Products for the device
#-------------------------------
dp_obj = IonObject(RT.DataProduct,
name='the parsed data',
description='ctd stream test',
temporal_domain = tdom,
spatial_domain = sdom)
data_product_id1 = self.dpclient.create_data_product(data_product=dp_obj, stream_definition_id=parsed_stream_def_id)
log.debug( 'new dp_id = %s' , data_product_id1)
self.dpclient.activate_data_product_persistence(data_product_id=data_product_id1)
self.damsclient.assign_data_product(input_resource_id=instDevice_id, data_product_id=data_product_id1)
# Retrieve the id of the OUTPUT stream from the out Data Product
stream_ids, _ = self.rrclient.find_objects(data_product_id1, PRED.hasStream, None, True)
log.debug('Data product streams1 = %s', stream_ids)
# Retrieve the id of the OUTPUT stream from the out Data Product
dataset_ids, _ = self.rrclient.find_objects(data_product_id1, PRED.hasDataset, RT.Dataset, True)
log.debug('Data set for data_product_id1 = %s' , dataset_ids[0])
self.parsed_dataset = dataset_ids[0]
pid = self.create_logger('ctd_parsed', stream_ids[0] )
self.loggerpids.append(pid)
dp_obj = IonObject(RT.DataProduct,
name='the raw data',
description='raw stream test',
temporal_domain = tdom,
spatial_domain = sdom)
data_product_id2 = self.dpclient.create_data_product(data_product=dp_obj, stream_definition_id=raw_stream_def_id)
log.debug('new dp_id = %s', data_product_id2)
self.damsclient.assign_data_product(input_resource_id=instDevice_id, data_product_id=data_product_id2)
self.dpclient.activate_data_product_persistence(data_product_id=data_product_id2)
# setup notifications for the device and parsed data product
user_id_1 = self._create_notification( user_name='user_1', instrument_id=instDevice_id, product_id=data_product_id1)
#---------- Create notifications for another user and verify that we see different computed subscriptions for the two users ---------
user_id_2 = self._create_notification( user_name='user_2', instrument_id=instDevice_id, product_id=data_product_id2)
# Retrieve the id of the OUTPUT stream from the out Data Product
stream_ids, _ = self.rrclient.find_objects(data_product_id2, PRED.hasStream, None, True)
log.debug('Data product streams2 = %s' , str(stream_ids))
# Retrieve the id of the OUTPUT stream from the out Data Product
dataset_ids, _ = self.rrclient.find_objects(data_product_id2, PRED.hasDataset, RT.Dataset, True)
log.debug('Data set for data_product_id2 = %s' , dataset_ids[0])
self.raw_dataset = dataset_ids[0]
#elastic search debug
es_indexes, _ = self.container.resource_registry.find_resources(restype='ElasticSearchIndex')
log.debug('ElasticSearch indexes: %s', [i.name for i in es_indexes])
log.debug('Bootstrap %s', CFG.bootstrap.use_es)
def start_instrument_agent():
self.imsclient.start_instrument_agent_instance(instrument_agent_instance_id=instAgentInstance_id)
gevent.joinall([gevent.spawn(start_instrument_agent)])
#setup a subscriber to alarm events from the device
self._events_received= []
self._event_count = 0
self._samples_out_of_range = 0
self._samples_complete = False
self._async_sample_result = AsyncResult()
def consume_event(*args, **kwargs):
log.debug('TestActivateInstrument recieved ION event: args=%s, kwargs=%s, event=%s.',
str(args), str(kwargs), str(args[0]))
self._events_received.append(args[0])
self._event_count = len(self._events_received)
self._async_sample_result.set()
self._event_subscriber = EventSubscriber(
event_type= 'StreamWarningAlarmEvent', #'StreamWarningAlarmEvent', # StreamAlarmEvent
callback=consume_event,
origin=instDevice_id)
self._event_subscriber.start()
#cleanup
self.addCleanup(self.imsclient.stop_instrument_agent_instance,
instrument_agent_instance_id=instAgentInstance_id)
def stop_subscriber():
self._event_subscriber.stop()
self._event_subscriber = None
self.addCleanup(stop_subscriber)
#wait for start
inst_agent_instance_obj = self.imsclient.read_instrument_agent_instance(instAgentInstance_id)
gate = ProcessStateGate(self.processdispatchclient.read_process,
inst_agent_instance_obj.agent_process_id,
ProcessStateEnum.RUNNING)
self.assertTrue(gate.await(30), "The instrument agent instance (%s) did not spawn in 30 seconds" %
inst_agent_instance_obj.agent_process_id)
log.debug('Instrument agent instance obj: = %s' , str(inst_agent_instance_obj))
# Start a resource agent client to talk with the instrument agent.
self._ia_client = ResourceAgentClient(instDevice_id,
to_name=inst_agent_instance_obj.agent_process_id,
process=FakeProcess())
log.debug("test_activateInstrumentSample: got ia client %s" , str(self._ia_client))
cmd = AgentCommand(command=ResourceAgentEvent.INITIALIZE)
retval = self._ia_client.execute_agent(cmd)
log.debug("test_activateInstrumentSample: initialize %s" , str(retval))
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.INACTIVE)
log.debug("(L4-CI-SA-RQ-334): Sending go_active command ")
cmd = AgentCommand(command=ResourceAgentEvent.GO_ACTIVE)
reply = self._ia_client.execute_agent(cmd)
log.debug("test_activateInstrument: return value from go_active %s" , str(reply))
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.IDLE)
cmd = AgentCommand(command=ResourceAgentEvent.GET_RESOURCE_STATE)
retval = self._ia_client.execute_agent(cmd)
state = retval.result
log.debug("(L4-CI-SA-RQ-334): current state after sending go_active command %s" , str(state))
cmd = AgentCommand(command=ResourceAgentEvent.RUN)
reply = self._ia_client.execute_agent(cmd)
log.debug("test_activateInstrumentSample: run %s" , str(reply))
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.COMMAND)
cmd = AgentCommand(command=ResourceAgentEvent.PAUSE)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.STOPPED)
cmd = AgentCommand(command=ResourceAgentEvent.RESUME)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.COMMAND)
cmd = AgentCommand(command=ResourceAgentEvent.CLEAR)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.IDLE)
cmd = AgentCommand(command=ResourceAgentEvent.RUN)
retval = self._ia_client.execute_agent(cmd)
state = self._ia_client.get_agent_state()
self.assertEqual(state, ResourceAgentState.COMMAND)
cmd = AgentCommand(command=SBE37ProtocolEvent.ACQUIRE_SAMPLE)
for i in xrange(10):
retval = self._ia_client.execute_resource(cmd)
log.debug("test_activateInstrumentSample: return from sample %s" , str(retval))
log.debug( "test_activateInstrumentSample: calling reset ")
cmd = AgentCommand(command=ResourceAgentEvent.RESET)
reply = self._ia_client.execute_agent(cmd)
log.debug("test_activateInstrumentSample: return from reset %s" , str(reply))
self._samples_complete = True
#--------------------------------------------------------------------------------
# Now get the data in one chunk using an RPC Call to start_retreive
#--------------------------------------------------------------------------------
replay_data = self.dataretrieverclient.retrieve(self.parsed_dataset)
self.assertIsInstance(replay_data, Granule)
rdt = RecordDictionaryTool.load_from_granule(replay_data)
log.debug("test_activateInstrumentSample: RDT parsed: %s", str(rdt.pretty_print()) )
temp_vals = rdt['temp']
self.assertEquals(len(temp_vals) , 10)
log.debug("test_activateInstrumentSample: all temp_vals: %s", temp_vals )
#out_of_range_temp_vals = [i for i in temp_vals if i > 5]
out_of_range_temp_vals = [i for i in temp_vals if i < 50.0]
log.debug("test_activateInstrumentSample: Out_of_range_temp_vals: %s", out_of_range_temp_vals )
self._samples_out_of_range = len(out_of_range_temp_vals)
# if no bad values were produced, then do not wait for an event
if self._samples_out_of_range == 0:
self._async_sample_result.set()
log.debug("test_activateInstrumentSample: _events_received: %s", self._events_received )
log.debug("test_activateInstrumentSample: _event_count: %s", self._event_count )
self._async_sample_result.get(timeout=CFG.endpoint.receive.timeout)
replay_data = self.dataretrieverclient.retrieve(self.raw_dataset)
self.assertIsInstance(replay_data, Granule)
rdt = RecordDictionaryTool.load_from_granule(replay_data)
log.debug("RDT raw: %s", str(rdt.pretty_print()) )
raw_vals = rdt['raw']
self.assertEquals(len(raw_vals) , 10)
log.debug("l4-ci-sa-rq-138")
"""
Physical resource control shall be subject to policy
Instrument management control capabilities shall be subject to policy
The actor accessing the control capabilities must be authorized to send commands.
note from maurice 2012-05-18: Talk to tim M to verify that this is policy. If it is then talk with Stephen to
get an example of a policy test and use that to create a test stub that will be
completed when we have instrument policies.
Tim M: The "actor", aka observatory operator, will access the instrument through ION.
"""
#--------------------------------------------------------------------------------
# Get the extended data product to see if it contains the granules
#--------------------------------------------------------------------------------
extended_product = self.dpclient.get_data_product_extension(data_product_id=data_product_id1, user_id=user_id_1)
def poller(extended_product):
return len(extended_product.computed.user_notification_requests.value) == 1
poll(poller, extended_product, timeout=30)
self._check_computed_attributes_of_extended_product( expected_data_product_id = data_product_id1, extended_data_product = extended_product)
#--------------------------------------------------------------------------------
#put some events into the eventsdb to test - this should set the comms and data status to WARNING
#--------------------------------------------------------------------------------
t = get_ion_ts()
self.event_publisher.publish_event( ts_created= t, event_type = 'DeviceStatusEvent',
origin = instDevice_id, state=DeviceStatusType.OUT_OF_RANGE, values = [200] )
self.event_publisher.publish_event( ts_created= t, event_type = 'DeviceCommsEvent',
origin = instDevice_id, state=DeviceCommsType.DATA_DELIVERY_INTERRUPTION, lapse_interval_seconds = 20 )
#--------------------------------------------------------------------------------
# Get the extended instrument
#--------------------------------------------------------------------------------
extended_instrument = self.imsclient.get_instrument_device_extension(instrument_device_id=instDevice_id, user_id=user_id_1)
self._check_computed_attributes_of_extended_instrument(expected_instrument_device_id = instDevice_id, extended_instrument = extended_instrument)
#--------------------------------------------------------------------------------
# For the second user, check the extended data product and the extended intrument
#--------------------------------------------------------------------------------
extended_product = self.dpclient.get_data_product_extension(data_product_id=data_product_id2, user_id=user_id_2)
self._check_computed_attributes_of_extended_product(expected_data_product_id = data_product_id2, extended_data_product = extended_product)
#---------- Put some events into the eventsdb to test - this should set the comms and data status to WARNING ---------
t = get_ion_ts()
self.event_publisher.publish_event( ts_created= t, event_type = 'DeviceStatusEvent',
origin = instDevice_id, state=DeviceStatusType.OUT_OF_RANGE, values = [200] )
self.event_publisher.publish_event( ts_created= t, event_type = 'DeviceCommsEvent',
origin = instDevice_id, state=DeviceCommsType.DATA_DELIVERY_INTERRUPTION, lapse_interval_seconds = 20 )
#--------------------------------------------------------------------------------
# Get the extended instrument
#--------------------------------------------------------------------------------
extended_instrument = self.imsclient.get_instrument_device_extension(instrument_device_id=instDevice_id, user_id=user_id_2)
self._check_computed_attributes_of_extended_instrument(expected_instrument_device_id = instDevice_id, extended_instrument = extended_instrument)
#--------------------------------------------------------------------------------
# Deactivate loggers
#--------------------------------------------------------------------------------
for pid in self.loggerpids:
self.processdispatchclient.cancel_process(pid)
self.dpclient.delete_data_product(data_product_id1)
self.dpclient.delete_data_product(data_product_id2)
class TestDataProductManagementServiceIntegration(IonIntegrationTestCase):
def setUp(self):
# Start container
#print 'instantiating container'
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.dpsc_cli = DataProductManagementServiceClient()
self.rrclient = ResourceRegistryServiceClient()
self.damsclient = DataAcquisitionManagementServiceClient()
self.pubsubcli = PubsubManagementServiceClient()
self.ingestclient = IngestionManagementServiceClient()
self.process_dispatcher = ProcessDispatcherServiceClient()
self.dataset_management = DatasetManagementServiceClient()
self.unsc = UserNotificationServiceClient()
self.data_retriever = DataRetrieverServiceClient()
self.identcli = IdentityManagementServiceClient()
#------------------------------------------
# Create the environment
#------------------------------------------
self.stream_def_id = self.pubsubcli.create_stream_definition(name='SBE37_CDM')
self.process_definitions = {}
ingestion_worker_definition = ProcessDefinition(name='ingestion worker')
ingestion_worker_definition.executable = {
'module':'ion.processes.data.ingestion.science_granule_ingestion_worker',
'class' :'ScienceGranuleIngestionWorker'
}
process_definition_id = self.process_dispatcher.create_process_definition(process_definition=ingestion_worker_definition)
self.process_definitions['ingestion_worker'] = process_definition_id
self.pids = []
self.exchange_points = []
self.exchange_names = []
#------------------------------------------------------------------------------------------------
# First launch the ingestors
#------------------------------------------------------------------------------------------------
self.exchange_space = 'science_granule_ingestion'
self.exchange_point = 'science_data'
config = DotDict()
config.process.datastore_name = 'datasets'
config.process.queue_name = self.exchange_space
self.exchange_names.append(self.exchange_space)
self.exchange_points.append(self.exchange_point)
pid = self.process_dispatcher.schedule_process(self.process_definitions['ingestion_worker'],configuration=config)
log.debug("the ingestion worker process id: %s", pid)
self.pids.append(pid)
self.addCleanup(self.cleaning_up)
def cleaning_up(self):
for pid in self.pids:
log.debug("number of pids to be terminated: %s", len(self.pids))
try:
self.process_dispatcher.cancel_process(pid)
log.debug("Terminated the process: %s", pid)
except:
log.debug("could not terminate the process id: %s" % pid)
IngestionManagementIntTest.clean_subscriptions()
for xn in self.exchange_names:
xni = self.container.ex_manager.create_xn_queue(xn)
xni.delete()
for xp in self.exchange_points:
xpi = self.container.ex_manager.create_xp(xp)
xpi.delete()
def get_datastore(self, dataset_id):
dataset = self.dataset_management.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
@attr('EXT')
@attr('PREP')
def test_create_data_product(self):
#------------------------------------------------------------------------------------------------
# create a stream definition for the data from the ctd simulator
#------------------------------------------------------------------------------------------------
parameter_dictionary = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict')
ctd_stream_def_id = self.pubsubcli.create_stream_definition(name='Simulated CTD data', parameter_dictionary_id=parameter_dictionary._id)
log.debug("Created stream def id %s" % ctd_stream_def_id)
#------------------------------------------------------------------------------------------------
# test creating a new data product w/o a stream definition
#------------------------------------------------------------------------------------------------
dp_obj = IonObject(RT.DataProduct,
name='DP1',
description='some new dp')
dp_obj.geospatial_bounds.geospatial_latitude_limit_north = 10.0
dp_obj.geospatial_bounds.geospatial_latitude_limit_south = -10.0
dp_obj.geospatial_bounds.geospatial_longitude_limit_east = 10.0
dp_obj.geospatial_bounds.geospatial_longitude_limit_west = -10.0
dp_obj.ooi_product_name = "PRODNAME"
#------------------------------------------------------------------------------------------------
# Create a set of ParameterContext objects to define the parameters in the coverage, add each to the ParameterDictionary
#------------------------------------------------------------------------------------------------
dp_id = self.dpsc_cli.create_data_product( data_product= dp_obj,
stream_definition_id=ctd_stream_def_id)
# Assert that the data product has an associated stream at this stage
stream_ids, _ = self.rrclient.find_objects(dp_id, PRED.hasStream, RT.Stream, True)
self.assertNotEquals(len(stream_ids), 0)
# Assert that the data product has an associated stream def at this stage
stream_ids, _ = self.rrclient.find_objects(dp_id, PRED.hasStreamDefinition, RT.StreamDefinition, True)
self.assertNotEquals(len(stream_ids), 0)
self.dpsc_cli.activate_data_product_persistence(dp_id)
dp_obj = self.dpsc_cli.read_data_product(dp_id)
self.assertIsNotNone(dp_obj)
self.assertEquals(dp_obj.geospatial_point_center.lat, 0.0)
log.debug('Created data product %s', dp_obj)
#------------------------------------------------------------------------------------------------
# test creating a new data product with a stream definition
#------------------------------------------------------------------------------------------------
log.debug('Creating new data product with a stream definition')
dp_obj = IonObject(RT.DataProduct,
name='DP2',
description='some new dp')
dp_id2 = self.dpsc_cli.create_data_product(dp_obj, ctd_stream_def_id)
self.dpsc_cli.activate_data_product_persistence(dp_id2)
log.debug('new dp_id = %s' % dp_id2)
#------------------------------------------------------------------------------------------------
#make sure data product is associated with stream def
#------------------------------------------------------------------------------------------------
streamdefs = []
streams, _ = self.rrclient.find_objects(dp_id2, PRED.hasStream, RT.Stream, True)
for s in streams:
log.debug("Checking stream %s" % s)
sdefs, _ = self.rrclient.find_objects(s, PRED.hasStreamDefinition, RT.StreamDefinition, True)
for sd in sdefs:
log.debug("Checking streamdef %s" % sd)
streamdefs.append(sd)
self.assertIn(ctd_stream_def_id, streamdefs)
group_names = self.dpsc_cli.get_data_product_group_list()
self.assertIn("PRODNAME", group_names)
#----------------------------------------------------------------------------------------
# Create users then notifications to this data product for each user
#----------------------------------------------------------------------------------------
# user_1
user_1 = UserInfo()
user_1.name = 'user_1'
user_1.contact.email = '*****@*****.**'
# user_2
user_2 = UserInfo()
user_2.name = 'user_2'
user_2.contact.email = '*****@*****.**'
#user1 is a complete user
self.subject = "/DC=org/DC=cilogon/C=US/O=ProtectNetwork/CN=Roger Unwin A254"
actor_identity_obj = IonObject("ActorIdentity", {"name": self.subject})
actor_id = self.identcli.create_actor_identity(actor_identity_obj)
user_credentials_obj = IonObject("UserCredentials", {"name": self.subject})
self.identcli.register_user_credentials(actor_id, user_credentials_obj)
user_id_1 = self.identcli.create_user_info(actor_id, user_1)
user_id_2, _ = self.rrclient.create(user_2)
delivery_config1a = IonObject(OT.DeliveryConfiguration, email='*****@*****.**', mode=DeliveryModeEnum.EMAIL, frequency=NotificationFrequencyEnum.BATCH)
delivery_config1b = IonObject(OT.DeliveryConfiguration, email='*****@*****.**', mode=DeliveryModeEnum.EMAIL, frequency=NotificationFrequencyEnum.BATCH)
notification_request_1 = NotificationRequest( name = "notification_1",
origin=dp_id,
origin_type="type_1",
event_type=OT.ResourceLifecycleEvent,
disabled_by_system = False,
delivery_configurations=[delivery_config1a, delivery_config1b])
delivery_config2a = IonObject(OT.DeliveryConfiguration, email='*****@*****.**', mode=DeliveryModeEnum.EMAIL, frequency=NotificationFrequencyEnum.BATCH)
delivery_config2b = IonObject(OT.DeliveryConfiguration, email='*****@*****.**', mode=DeliveryModeEnum.EMAIL, frequency=NotificationFrequencyEnum.BATCH)
notification_request_2 = NotificationRequest( name = "notification_2",
origin=dp_id,
origin_type="type_2",
disabled_by_system = False,
event_type=OT.DetectionEvent,
delivery_configurations=[delivery_config2a, delivery_config2b])
notification_request_1_id = self.unsc.create_notification(notification=notification_request_1, user_id=user_id_1)
notification_request_2_id = self.unsc.create_notification(notification=notification_request_2, user_id=user_id_2)
self.unsc.delete_notification(notification_request_1_id)
# test reading a non-existent data product
log.debug('reading non-existent data product')
with self.assertRaises(NotFound):
dp_obj = self.dpsc_cli.read_data_product('some_fake_id')
# update a data product (tests read also)
log.debug('Updating data product')
# first get the existing dp object
dp_obj = self.dpsc_cli.read_data_product(dp_id)
# now tweak the object
dp_obj.description = 'the very first dp'
dp_obj.geospatial_bounds.geospatial_latitude_limit_north = 20.0
dp_obj.geospatial_bounds.geospatial_latitude_limit_south = -20.0
dp_obj.geospatial_bounds.geospatial_longitude_limit_east = 20.0
dp_obj.geospatial_bounds.geospatial_longitude_limit_west = -20.0
# now write the dp back to the registry
update_result = self.dpsc_cli.update_data_product(dp_obj)
# now get the dp back to see if it was updated
dp_obj = self.dpsc_cli.read_data_product(dp_id)
self.assertEquals(dp_obj.description,'the very first dp')
self.assertEquals(dp_obj.geospatial_point_center.lat, 0.0)
log.debug('Updated data product %s', dp_obj)
#test extension
extended_product = self.dpsc_cli.get_data_product_extension(dp_id)
#validate that there is one active and one retired user notification for this data product
self.assertEqual(1, len(extended_product.computed.active_user_subscriptions.value))
self.assertEqual(1, len(extended_product.computed.past_user_subscriptions.value))
self.assertEqual(dp_id, extended_product._id)
self.assertEqual(ComputedValueAvailability.PROVIDED,
extended_product.computed.product_download_size_estimated.status)
self.assertEqual(0, extended_product.computed.product_download_size_estimated.value)
self.assertEqual(ComputedValueAvailability.PROVIDED,
extended_product.computed.parameters.status)
#log.debug("test_create_data_product: parameters %s" % extended_product.computed.parameters.value)
def ion_object_encoder(obj):
return obj.__dict__
#test prepare for create
data_product_data = self.dpsc_cli.prepare_data_product_support()
#print simplejson.dumps(data_product_data, default=ion_object_encoder, indent= 2)
self.assertEqual(data_product_data._id, "")
self.assertEqual(data_product_data.type_, OT.DataProductPrepareSupport)
self.assertEqual(len(data_product_data.associations['StreamDefinition'].resources), 2)
self.assertEqual(len(data_product_data.associations['Dataset'].resources), 0)
self.assertEqual(len(data_product_data.associations['StreamDefinition'].associated_resources), 0)
self.assertEqual(len(data_product_data.associations['Dataset'].associated_resources), 0)
#test prepare for update
data_product_data = self.dpsc_cli.prepare_data_product_support(dp_id)
#print simplejson.dumps(data_product_data, default=ion_object_encoder, indent= 2)
self.assertEqual(data_product_data._id, dp_id)
self.assertEqual(data_product_data.type_, OT.DataProductPrepareSupport)
self.assertEqual(len(data_product_data.associations['StreamDefinition'].resources), 2)
self.assertEqual(len(data_product_data.associations['Dataset'].resources), 1)
self.assertEqual(len(data_product_data.associations['StreamDefinition'].associated_resources), 1)
self.assertEqual(data_product_data.associations['StreamDefinition'].associated_resources[0].s, dp_id)
self.assertEqual(len(data_product_data.associations['Dataset'].associated_resources), 1)
self.assertEqual(data_product_data.associations['Dataset'].associated_resources[0].s, dp_id)
# now 'delete' the data product
log.debug("deleting data product: %s" % dp_id)
self.dpsc_cli.delete_data_product(dp_id)
# Assert that there are no associated streams leftover after deleting the data product
stream_ids, assoc_ids = self.rrclient.find_objects(dp_id, PRED.hasStream, RT.Stream, True)
self.assertEquals(len(stream_ids), 0)
self.assertEquals(len(assoc_ids), 0)
self.dpsc_cli.force_delete_data_product(dp_id)
# now try to get the deleted dp object
with self.assertRaises(NotFound):
dp_obj = self.dpsc_cli.read_data_product(dp_id)
# Get the events corresponding to the data product
ret = self.unsc.get_recent_events(resource_id=dp_id)
events = ret.value
for event in events:
log.debug("event time: %s" % event.ts_created)
self.assertTrue(len(events) > 0)
def test_data_product_stream_def(self):
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
ctd_stream_def_id = self.pubsubcli.create_stream_definition(name='Simulated CTD data', parameter_dictionary_id=pdict_id)
dp_obj = IonObject(RT.DataProduct,
name='DP1',
description='some new dp')
dp_id = self.dpsc_cli.create_data_product(data_product= dp_obj,
stream_definition_id=ctd_stream_def_id)
stream_def_id = self.dpsc_cli.get_data_product_stream_definition(dp_id)
self.assertEquals(ctd_stream_def_id, stream_def_id)
def test_derived_data_product(self):
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
ctd_stream_def_id = self.pubsubcli.create_stream_definition(name='ctd parsed', parameter_dictionary_id=pdict_id)
self.addCleanup(self.pubsubcli.delete_stream_definition, ctd_stream_def_id)
dp = DataProduct(name='Instrument DP')
dp_id = self.dpsc_cli.create_data_product(dp, stream_definition_id=ctd_stream_def_id)
self.addCleanup(self.dpsc_cli.force_delete_data_product, dp_id)
self.dpsc_cli.activate_data_product_persistence(dp_id)
self.addCleanup(self.dpsc_cli.suspend_data_product_persistence, dp_id)
dataset_ids, _ = self.rrclient.find_objects(subject=dp_id, predicate=PRED.hasDataset, id_only=True)
if not dataset_ids:
raise NotFound("Data Product %s dataset does not exist" % str(dp_id))
dataset_id = dataset_ids[0]
# Make the derived data product
simple_stream_def_id = self.pubsubcli.create_stream_definition(name='TEMPWAT stream def', parameter_dictionary_id=pdict_id, available_fields=['time','temp'])
tempwat_dp = DataProduct(name='TEMPWAT', category=DataProductTypeEnum.DERIVED)
tempwat_dp_id = self.dpsc_cli.create_data_product(tempwat_dp, stream_definition_id=simple_stream_def_id, parent_data_product_id=dp_id)
self.addCleanup(self.dpsc_cli.delete_data_product, tempwat_dp_id)
# Check that the streams associated with the data product are persisted with
stream_ids, _ = self.rrclient.find_objects(dp_id,PRED.hasStream,RT.Stream,True)
for stream_id in stream_ids:
self.assertTrue(self.ingestclient.is_persisted(stream_id))
stream_id = stream_ids[0]
route = self.pubsubcli.read_stream_route(stream_id=stream_id)
rdt = RecordDictionaryTool(stream_definition_id=ctd_stream_def_id)
rdt['time'] = np.arange(20)
rdt['temp'] = np.arange(20)
rdt['pressure'] = np.arange(20)
publisher = StandaloneStreamPublisher(stream_id,route)
dataset_modified = Event()
def cb(*args, **kwargs):
dataset_modified.set()
es = EventSubscriber(event_type=OT.DatasetModified, callback=cb, origin=dataset_id, auto_delete=True)
es.start()
self.addCleanup(es.stop)
publisher.publish(rdt.to_granule())
self.assertTrue(dataset_modified.wait(30))
tempwat_dataset_ids, _ = self.rrclient.find_objects(tempwat_dp_id, PRED.hasDataset, id_only=True)
tempwat_dataset_id = tempwat_dataset_ids[0]
granule = self.data_retriever.retrieve(tempwat_dataset_id, delivery_format=simple_stream_def_id)
rdt = RecordDictionaryTool.load_from_granule(granule)
np.testing.assert_array_equal(rdt['time'], np.arange(20))
self.assertEquals(set(rdt.fields), set(['time','temp']))
def test_activate_suspend_data_product(self):
#------------------------------------------------------------------------------------------------
# create a stream definition for the data from the ctd simulator
#------------------------------------------------------------------------------------------------
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
ctd_stream_def_id = self.pubsubcli.create_stream_definition(name='Simulated CTD data', parameter_dictionary_id=pdict_id)
log.debug("Created stream def id %s" % ctd_stream_def_id)
#------------------------------------------------------------------------------------------------
# test creating a new data product w/o a stream definition
#------------------------------------------------------------------------------------------------
# Construct temporal and spatial Coordinate Reference System objects
dp_obj = IonObject(RT.DataProduct,
name='DP1',
description='some new dp')
log.debug("Created an IonObject for a data product: %s" % dp_obj)
#------------------------------------------------------------------------------------------------
# Create a set of ParameterContext objects to define the parameters in the coverage, add each to the ParameterDictionary
#------------------------------------------------------------------------------------------------
dp_id = self.dpsc_cli.create_data_product(data_product= dp_obj,
stream_definition_id=ctd_stream_def_id)
#------------------------------------------------------------------------------------------------
# Subscribe to persist events
#------------------------------------------------------------------------------------------------
queue = gevent.queue.Queue()
def info_event_received(message, headers):
queue.put(message)
es = EventSubscriber(event_type=OT.InformationContentStatusEvent, callback=info_event_received, origin=dp_id, auto_delete=True)
es.start()
self.addCleanup(es.stop)
#------------------------------------------------------------------------------------------------
# test activate and suspend data product persistence
#------------------------------------------------------------------------------------------------
self.dpsc_cli.activate_data_product_persistence(dp_id)
dp_obj = self.dpsc_cli.read_data_product(dp_id)
self.assertIsNotNone(dp_obj)
dataset_ids, _ = self.rrclient.find_objects(subject=dp_id, predicate=PRED.hasDataset, id_only=True)
if not dataset_ids:
raise NotFound("Data Product %s dataset does not exist" % str(dp_id))
dataset_id = dataset_ids[0]
# Check that the streams associated with the data product are persisted with
stream_ids, _ = self.rrclient.find_objects(dp_id,PRED.hasStream,RT.Stream,True)
for stream_id in stream_ids:
self.assertTrue(self.ingestclient.is_persisted(stream_id))
stream_id = stream_ids[0]
route = self.pubsubcli.read_stream_route(stream_id=stream_id)
rdt = RecordDictionaryTool(stream_definition_id=ctd_stream_def_id)
rdt['time'] = np.arange(20)
rdt['temp'] = np.arange(20)
publisher = StandaloneStreamPublisher(stream_id,route)
dataset_modified = Event()
def cb(*args, **kwargs):
dataset_modified.set()
es = EventSubscriber(event_type=OT.DatasetModified, callback=cb, origin=dataset_id, auto_delete=True)
es.start()
self.addCleanup(es.stop)
publisher.publish(rdt.to_granule())
self.assertTrue(dataset_modified.wait(30))
#--------------------------------------------------------------------------------
# Now get the data in one chunk using an RPC Call to start_retreive
#--------------------------------------------------------------------------------
replay_data = self.data_retriever.retrieve(dataset_ids[0])
self.assertIsInstance(replay_data, Granule)
log.debug("The data retriever was able to replay the dataset that was attached to the data product "
"we wanted to be persisted. Therefore the data product was indeed persisted with "
"otherwise we could not have retrieved its dataset using the data retriever. Therefore "
"this demonstration shows that L4-CI-SA-RQ-267 is satisfied: 'Data product management shall persist data products'")
data_product_object = self.rrclient.read(dp_id)
self.assertEquals(data_product_object.name,'DP1')
self.assertEquals(data_product_object.description,'some new dp')
log.debug("Towards L4-CI-SA-RQ-308: 'Data product management shall persist data product metadata'. "
" Attributes in create for the data product obj, name= '%s', description='%s', match those of object from the "
"resource registry, name='%s', desc='%s'" % (dp_obj.name, dp_obj.description,data_product_object.name,
data_product_object.description))
#------------------------------------------------------------------------------------------------
# test suspend data product persistence
#------------------------------------------------------------------------------------------------
self.dpsc_cli.suspend_data_product_persistence(dp_id)
dataset_modified.clear()
rdt['time'] = np.arange(20,40)
publisher.publish(rdt.to_granule())
self.assertFalse(dataset_modified.wait(2))
self.dpsc_cli.activate_data_product_persistence(dp_id)
dataset_modified.clear()
publisher.publish(rdt.to_granule())
self.assertTrue(dataset_modified.wait(30))
granule = self.data_retriever.retrieve(dataset_id)
rdt = RecordDictionaryTool.load_from_granule(granule)
np.testing.assert_array_almost_equal(rdt['time'], np.arange(40))
dataset_ids, _ = self.rrclient.find_objects(dp_id, PRED.hasDataset, id_only=True)
self.assertEquals(len(dataset_ids), 1)
self.dpsc_cli.suspend_data_product_persistence(dp_id)
self.dpsc_cli.force_delete_data_product(dp_id)
# now try to get the deleted dp object
with self.assertRaises(NotFound):
dp_obj = self.rrclient.read(dp_id)
info_event_counter = 0
runtime = 0
starttime = time.time()
caught_events = []
#check that the four InfoStatusEvents were received
while info_event_counter < 4 and runtime < 60 :
a = queue.get(timeout=60)
caught_events.append(a)
info_event_counter += 1
runtime = time.time() - starttime
self.assertEquals(info_event_counter, 4)
class TestInstrumentManagementServiceIntegration(IonIntegrationTestCase):
def setUp(self):
# Start container
#print 'instantiating container'
self._start_container()
#container = Container()
#print 'starting container'
#container.start()
#print 'started container'
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.RR = ResourceRegistryServiceClient(node=self.container.node)
self.IMS = InstrumentManagementServiceClient(node=self.container.node)
self.IDS = IdentityManagementServiceClient(node=self.container.node)
self.PSC = PubsubManagementServiceClient(node=self.container.node)
self.DP = DataProductManagementServiceClient(node=self.container.node)
self.DAMS = DataAcquisitionManagementServiceClient(node=self.container.node)
self.DSC = DatasetManagementServiceClient(node=self.container.node)
self.PDC = ProcessDispatcherServiceClient(node=self.container.node)
print 'started services'
# @unittest.skip('this test just for debugging setup')
# def test_just_the_setup(self):
# return
@attr('EXT')
def test_resources_associations_extensions(self):
"""
create one of each resource and association used by IMS
to guard against problems in ion-definitions
"""
#stuff we control
instrument_agent_instance_id, _ = self.RR.create(any_old(RT.InstrumentAgentInstance))
instrument_agent_id, _ = self.RR.create(any_old(RT.InstrumentAgent))
instrument_model_id, _ = self.RR.create(any_old(RT.InstrumentModel))
instrument_device_id, _ = self.RR.create(any_old(RT.InstrumentDevice))
platform_agent_instance_id, _ = self.RR.create(any_old(RT.PlatformAgentInstance))
platform_agent_id, _ = self.RR.create(any_old(RT.PlatformAgent))
platform_device_id, _ = self.RR.create(any_old(RT.PlatformDevice))
platform_model_id, _ = self.RR.create(any_old(RT.PlatformModel))
sensor_device_id, _ = self.RR.create(any_old(RT.SensorDevice))
sensor_model_id, _ = self.RR.create(any_old(RT.SensorModel))
#stuff we associate to
data_producer_id, _ = self.RR.create(any_old(RT.DataProducer))
org_id, _ = self.RR.create(any_old(RT.Org))
#instrument_agent_instance_id #is only a target
#instrument_agent
self.RR.create_association(instrument_agent_id, PRED.hasModel, instrument_model_id)
self.RR.create_association(instrument_agent_instance_id, PRED.hasAgentDefinition, instrument_agent_id)
#instrument_device
self.RR.create_association(instrument_device_id, PRED.hasModel, instrument_model_id)
self.RR.create_association(instrument_device_id, PRED.hasAgentInstance, instrument_agent_instance_id)
self.RR.create_association(instrument_device_id, PRED.hasDataProducer, data_producer_id)
self.RR.create_association(instrument_device_id, PRED.hasDevice, sensor_device_id)
self.RR.create_association(org_id, PRED.hasResource, instrument_device_id)
instrument_model_id #is only a target
platform_agent_instance_id #is only a target
#platform_agent
self.RR.create_association(platform_agent_id, PRED.hasModel, platform_model_id)
self.RR.create_association(platform_agent_instance_id, PRED.hasAgentDefinition, platform_agent_id)
#platform_device
self.RR.create_association(platform_device_id, PRED.hasModel, platform_model_id)
self.RR.create_association(platform_device_id, PRED.hasAgentInstance, platform_agent_instance_id)
self.RR.create_association(platform_device_id, PRED.hasDevice, instrument_device_id)
platform_model_id #is only a target
#sensor_device
self.RR.create_association(sensor_device_id, PRED.hasModel, sensor_model_id)
self.RR.create_association(sensor_device_id, PRED.hasDevice, instrument_device_id)
sensor_model_id #is only a target
#create a parsed product for this instrument output
tdom, sdom = time_series_domain()
tdom = tdom.dump()
sdom = sdom.dump()
dp_obj = IonObject(RT.DataProduct,
name='the parsed data',
description='ctd stream test',
processing_level_code='Parsed_Canonical',
temporal_domain = tdom,
spatial_domain = sdom)
pdict_id = self.DSC.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
parsed_stream_def_id = self.PSC.create_stream_definition(name='parsed', parameter_dictionary_id=pdict_id)
data_product_id1 = self.DP.create_data_product(data_product=dp_obj, stream_definition_id=parsed_stream_def_id)
log.debug( 'new dp_id = %s', data_product_id1)
self.DAMS.assign_data_product(input_resource_id=instrument_device_id, data_product_id=data_product_id1)
def addInstOwner(inst_id, subject):
actor_identity_obj = any_old(RT.ActorIdentity, {"name": subject})
user_id = self.IDS.create_actor_identity(actor_identity_obj)
user_info_obj = any_old(RT.UserInfo)
user_info_id = self.IDS.create_user_info(user_id, user_info_obj)
self.RR.create_association(inst_id, PRED.hasOwner, user_id)
#Testing multiple instrument owners
addInstOwner(instrument_device_id, "/DC=org/DC=cilogon/C=US/O=ProtectNetwork/CN=Roger Unwin A254")
addInstOwner(instrument_device_id, "/DC=org/DC=cilogon/C=US/O=ProtectNetwork/CN=Bob Cumbers A256")
extended_instrument = self.IMS.get_instrument_device_extension(instrument_device_id)
self.assertEqual(instrument_device_id, extended_instrument._id)
self.assertEqual(len(extended_instrument.owners), 2)
self.assertEqual(extended_instrument.instrument_model._id, instrument_model_id)
#check model
inst_model_obj = self.RR.read(instrument_model_id)
self.assertEqual(inst_model_obj.name, extended_instrument.instrument_model.name)
#check agent instance
inst_agent_instance_obj = self.RR.read(instrument_agent_instance_id)
self.assertEqual(inst_agent_instance_obj.name, extended_instrument.agent_instance.name)
#check agent
inst_agent_obj = self.RR.read(instrument_agent_id)
#compound assoc return list of lists so check the first element
self.assertEqual(inst_agent_obj.name, extended_instrument.instrument_agent[0].name)
#check platform device
plat_device_obj = self.RR.read(platform_device_id)
self.assertEqual(plat_device_obj.name, extended_instrument.platform_device.name)
#check sensor devices
self.assertEqual(1, len(extended_instrument.sensor_devices))
#check data_product_parameters_set
self.assertEqual(ComputedValueAvailability.PROVIDED,
extended_instrument.computed.data_product_parameters_set.status)
self.assertTrue( 'Parsed_Canonical' in extended_instrument.computed.data_product_parameters_set.value)
# the ctd parameters should include 'temp'
self.assertTrue( 'temp' in extended_instrument.computed.data_product_parameters_set.value['Parsed_Canonical'])
#none of these will work because there is no agent
self.assertEqual(ComputedValueAvailability.NOTAVAILABLE,
extended_instrument.computed.firmware_version.status)
self.assertEqual(ComputedValueAvailability.NOTAVAILABLE,
extended_instrument.computed.operational_state.status)
self.assertEqual(ComputedValueAvailability.PROVIDED,
extended_instrument.computed.power_status_roll_up.status)
self.assertEqual(ComputedValueAvailability.PROVIDED,
extended_instrument.computed.communications_status_roll_up.status)
self.assertEqual(ComputedValueAvailability.PROVIDED,
extended_instrument.computed.data_status_roll_up.status)
self.assertEqual(StatusType.STATUS_OK,
extended_instrument.computed.data_status_roll_up.value)
self.assertEqual(ComputedValueAvailability.PROVIDED,
extended_instrument.computed.location_status_roll_up.status)
# self.assertEqual(ComputedValueAvailability.PROVIDED,
# extended_instrument.computed.recent_events.status)
# self.assertEqual([], extended_instrument.computed.recent_events.value)
# cleanup
c = DotDict()
c.resource_registry = self.RR
resource_impl = ResourceImpl(c)
resource_impl.pluck(instrument_agent_id)
resource_impl.pluck(instrument_model_id)
resource_impl.pluck(instrument_device_id)
resource_impl.pluck(platform_agent_id)
self.IMS.force_delete_instrument_agent(instrument_agent_id)
self.IMS.force_delete_instrument_model(instrument_model_id)
self.IMS.force_delete_instrument_device(instrument_device_id)
self.IMS.force_delete_platform_agent_instance(platform_agent_instance_id)
self.IMS.force_delete_platform_agent(platform_agent_id)
self.IMS.force_delete_platform_device(platform_device_id)
self.IMS.force_delete_platform_model(platform_model_id)
self.IMS.force_delete_sensor_device(sensor_device_id)
self.IMS.force_delete_sensor_model(sensor_model_id)
#stuff we associate to
self.RR.delete(data_producer_id)
self.RR.delete(org_id)
def test_custom_attributes(self):
"""
Test assignment of custom attributes
"""
instrument_model_id, _ = self.RR.create(any_old(RT.InstrumentModel,
{"custom_attributes":
{"favorite_color": "attr desc goes here"}
}))
instrument_device_id, _ = self.RR.create(any_old(RT.InstrumentDevice,
{"custom_attributes":
{"favorite_color": "red",
"bogus_attr": "should raise warning"
}
}))
self.IMS.assign_instrument_model_to_instrument_device(instrument_model_id, instrument_device_id)
# cleanup
self.IMS.force_delete_instrument_device(instrument_device_id)
self.IMS.force_delete_instrument_model(instrument_model_id)
def _get_datastore(self, dataset_id):
dataset = self.DSC.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def test_checkpoint_restore(self):
# Create InstrumentModel
instModel_obj = IonObject(RT.InstrumentModel,
name='SBE37IMModel',
description="SBE37IMModel",
stream_configuration= {'raw': 'ctd_raw_param_dict' , 'parsed': 'ctd_parsed_param_dict' })
instModel_id = self.IMS.create_instrument_model(instModel_obj)
log.debug( 'new InstrumentModel id = %s ', instModel_id)
# Create InstrumentAgent
instAgent_obj = IonObject(RT.InstrumentAgent,
name='agent007',
description="SBE37IMAgent",
driver_module="mi.instrument.seabird.sbe37smb.ooicore.driver",
driver_class="SBE37Driver" )
instAgent_id = self.IMS.create_instrument_agent(instAgent_obj)
log.debug( 'new InstrumentAgent id = %s', instAgent_id)
self.IMS.assign_instrument_model_to_instrument_agent(instModel_id, instAgent_id)
# Create InstrumentDevice
log.debug('test_activateInstrumentSample: Create instrument resource to represent the SBE37 '
+ '(SA Req: L4-CI-SA-RQ-241) ')
instDevice_obj = IonObject(RT.InstrumentDevice,
name='SBE37IMDevice',
description="SBE37IMDevice",
serial_number="12345" )
instDevice_id = self.IMS.create_instrument_device(instrument_device=instDevice_obj)
self.IMS.assign_instrument_model_to_instrument_device(instModel_id, instDevice_id)
log.debug("test_activateInstrumentSample: new InstrumentDevice id = %s (SA Req: L4-CI-SA-RQ-241) ",
instDevice_id)
port_agent_config = {
'device_addr': 'sbe37-simulator.oceanobservatories.org',
'device_port': 4001,
'process_type': PortAgentProcessType.UNIX,
'binary_path': "port_agent",
'command_port': 4002,
'data_port': 4003,
'log_level': 5,
}
instAgentInstance_obj = IonObject(RT.InstrumentAgentInstance, name='SBE37IMAgentInstance',
description="SBE37IMAgentInstance",
comms_device_address='sbe37-simulator.oceanobservatories.org',
comms_device_port=4001,
port_agent_config = port_agent_config)
instAgentInstance_id = self.IMS.create_instrument_agent_instance(instAgentInstance_obj,
instAgent_id,
instDevice_id)
tdom, sdom = time_series_domain()
sdom = sdom.dump()
tdom = tdom.dump()
spdict_id = self.DSC.read_parameter_dictionary_by_name('ctd_parsed_param_dict')
parsed_stream_def_id = self.PSC.create_stream_definition(name='parsed', parameter_dictionary=spdict_id)
rpdict_id = self.DSC.read_parameter_dictionary_by_name('ctd_raw_param_dict')
raw_stream_def_id = self.PSC.create_stream_definition(name='raw', parameter_dictionary=rpdict_id)
#-------------------------------
# Create Raw and Parsed Data Products for the device
#-------------------------------
dp_obj = IonObject(RT.DataProduct,
name='the parsed data',
description='ctd stream test',
temporal_domain = tdom,
spatial_domain = sdom)
data_product_id1 = self.DP.create_data_product(data_product=dp_obj,
stream_definition_id=parsed_stream_def_id,
parameter_dictionary=spdict_id)
log.debug( 'new dp_id = %s', data_product_id1)
self.DAMS.assign_data_product(input_resource_id=instDevice_id, data_product_id=data_product_id1)
# Retrieve the id of the OUTPUT stream from the out Data Product
stream_ids, _ = self.RR.find_objects(data_product_id1, PRED.hasStream, None, True)
log.debug( 'Data product streams1 = %s', stream_ids)
# Retrieve the id of the OUTPUT stream from the out Data Product
dataset_ids, _ = self.RR.find_objects(data_product_id1, PRED.hasDataset, RT.Dataset, True)
log.debug( 'Data set for data_product_id1 = %s', dataset_ids[0])
self.parsed_dataset = dataset_ids[0]
#create the datastore at the beginning of each int test that persists data
self._get_datastore(self.parsed_dataset)
self.DP.activate_data_product_persistence(data_product_id=data_product_id1)
dp_obj = IonObject(RT.DataProduct,
name='the raw data',
description='raw stream test',
temporal_domain = tdom,
spatial_domain = sdom)
data_product_id2 = self.DP.create_data_product(data_product=dp_obj,
stream_definition_id=raw_stream_def_id,
parameter_dictionary=rpdict_id)
log.debug( 'new dp_id = %s', str(data_product_id2))
self.DAMS.assign_data_product(input_resource_id=instDevice_id, data_product_id=data_product_id2)
self.DP.activate_data_product_persistence(data_product_id=data_product_id2)
# spin up agent
self.IMS.start_instrument_agent_instance(instrument_agent_instance_id=instAgentInstance_id)
self.addCleanup(self.IMS.stop_instrument_agent_instance,
instrument_agent_instance_id=instAgentInstance_id)
#wait for start
instance_obj = self.IMS.read_instrument_agent_instance(instAgentInstance_id)
gate = ProcessStateGate(self.PDC.read_process,
instance_obj.agent_process_id,
ProcessStateEnum.RUNNING)
self.assertTrue(gate.await(30), "The instrument agent instance (%s) did not spawn in 30 seconds" %
instance_obj.agent_process_id)
# take snapshot of config
snap_id = self.IMS.agent_state_checkpoint(instDevice_id, "xyzzy snapshot")
snap_obj = self.RR.read_attachment(snap_id, include_content=True)
print "Saved config:"
print snap_obj.content
#modify config
instance_obj.driver_config["comms_config"] = "BAD_DATA"
self.RR.update(instance_obj)
#restore config
self.IMS.agent_state_restore(instDevice_id, snap_id)
instance_obj = self.RR.read(instAgentInstance_id)
self.assertNotEqual("BAD_DATA", instance_obj.driver_config["comms_config"])
class TestDMEnd2End(IonIntegrationTestCase):
def setUp(self): # Love the non pep-8 convention
self._start_container()
self.container.start_rel_from_url('res/deploy/r2deploy.yml')
self.process_dispatcher = ProcessDispatcherServiceClient()
self.pubsub_management = PubsubManagementServiceClient()
self.resource_registry = ResourceRegistryServiceClient()
self.dataset_management = DatasetManagementServiceClient()
self.ingestion_management = IngestionManagementServiceClient()
self.data_retriever = DataRetrieverServiceClient()
self.event = Event()
self.exchange_space_name = 'test_granules'
self.exchange_point_name = 'science_data'
self.i = 0
self.cci = 0
#--------------------------------------------------------------------------------
# Helper/Utility methods
#--------------------------------------------------------------------------------
def create_dataset(self, parameter_dict_id=''):
'''
Creates a time-series dataset
'''
if not parameter_dict_id:
parameter_dict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
dataset = Dataset('test_dataset_%i'%self.i)
dataset_id = self.dataset_management.create_dataset(dataset, parameter_dictionary_id=parameter_dict_id)
self.addCleanup(self.dataset_management.delete_dataset, dataset_id)
return dataset_id
def get_datastore(self, dataset_id):
'''
Gets an instance of the datastore
This method is primarily used to defeat a bug where integration tests in multiple containers may sometimes
delete a CouchDB datastore and the other containers are unaware of the new state of the datastore.
'''
dataset = self.dataset_management.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def get_ingestion_config(self):
'''
Grab the ingestion configuration from the resource registry
'''
# The ingestion configuration should have been created by the bootstrap service
# which is configured through r2deploy.yml
ingest_configs, _ = self.resource_registry.find_resources(restype=RT.IngestionConfiguration,id_only=True)
return ingest_configs[0]
def launch_producer(self, stream_id=''):
'''
Launch the producer
'''
pid = self.container.spawn_process('better_data_producer', 'ion.processes.data.example_data_producer', 'BetterDataProducer', {'process':{'stream_id':stream_id}})
self.addCleanup(self.container.terminate_process, pid)
def make_simple_dataset(self):
'''
Makes a stream, a stream definition and a dataset, the essentials for most of these tests
'''
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict', id_only=True)
stream_def_id = self.pubsub_management.create_stream_definition('ctd data %i' % self.i, parameter_dictionary_id=pdict_id)
self.addCleanup(self.pubsub_management.delete_stream_definition, stream_def_id)
stream_id, route = self.pubsub_management.create_stream('ctd stream %i' % self.i, 'xp1', stream_definition_id=stream_def_id)
self.addCleanup(self.pubsub_management.delete_stream, stream_id)
dataset_id = self.create_dataset(pdict_id)
# self.get_datastore(dataset_id)
self.i += 1
return stream_id, route, stream_def_id, dataset_id
def publish_hifi(self,stream_id,stream_route,offset=0):
'''
Publish deterministic data
'''
pub = StandaloneStreamPublisher(stream_id, stream_route)
stream_def = self.pubsub_management.read_stream_definition(stream_id=stream_id)
stream_def_id = stream_def._id
rdt = RecordDictionaryTool(stream_definition_id=stream_def_id)
rdt['time'] = np.arange(10) + (offset * 10)
rdt['temp'] = np.arange(10) + (offset * 10)
pub.publish(rdt.to_granule())
def publish_fake_data(self,stream_id, route):
'''
Make four granules
'''
for i in xrange(4):
self.publish_hifi(stream_id,route,i)
def start_ingestion(self, stream_id, dataset_id):
'''
Starts ingestion/persistence for a given dataset
'''
ingest_config_id = self.get_ingestion_config()
self.ingestion_management.persist_data_stream(stream_id=stream_id, ingestion_configuration_id=ingest_config_id, dataset_id=dataset_id)
def stop_ingestion(self, stream_id):
ingest_config_id = self.get_ingestion_config()
self.ingestion_management.unpersist_data_stream(stream_id=stream_id, ingestion_configuration_id=ingest_config_id)
def validate_granule_subscription(self, msg, route, stream_id):
'''
Validation for granule format
'''
if msg == {}:
return
rdt = RecordDictionaryTool.load_from_granule(msg)
log.info('%s', rdt.pretty_print())
self.assertIsInstance(msg,Granule,'Message is improperly formatted. (%s)' % type(msg))
self.event.set()
def wait_until_we_have_enough_granules(self, dataset_id='',data_size=40):
'''
Loops until there is a sufficient amount of data in the dataset
'''
done = False
with gevent.Timeout(40):
while not done:
extents = self.dataset_management.dataset_extents(dataset_id, 'time')
granule = self.data_retriever.retrieve_last_data_points(dataset_id, 1)
rdt = RecordDictionaryTool.load_from_granule(granule)
if rdt['time'] and rdt['time'][0] != rdt._pdict.get_context('time').fill_value and extents >= data_size:
done = True
else:
gevent.sleep(0.2)
#--------------------------------------------------------------------------------
# Test Methods
#--------------------------------------------------------------------------------
def test_dm_end_2_end(self):
#--------------------------------------------------------------------------------
# Set up a stream and have a mock instrument (producer) send data
#--------------------------------------------------------------------------------
self.event.clear()
# Get a precompiled parameter dictionary with basic ctd fields
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict',id_only=True)
context_ids = self.dataset_management.read_parameter_contexts(pdict_id, id_only=True)
# Add a field that supports binary data input.
bin_context = ParameterContext('binary', param_type=ArrayType())
context_ids.append(self.dataset_management.create_parameter_context('binary', bin_context.dump()))
# Add another field that supports dictionary elements.
rec_context = ParameterContext('records', param_type=RecordType())
context_ids.append(self.dataset_management.create_parameter_context('records', rec_context.dump()))
pdict_id = self.dataset_management.create_parameter_dictionary('replay_pdict', parameter_context_ids=context_ids, temporal_context='time')
stream_definition = self.pubsub_management.create_stream_definition('ctd data', parameter_dictionary_id=pdict_id)
stream_id, route = self.pubsub_management.create_stream('producer', exchange_point=self.exchange_point_name, stream_definition_id=stream_definition)
#--------------------------------------------------------------------------------
# Start persisting the data on the stream
# - Get the ingestion configuration from the resource registry
# - Create the dataset
# - call persist_data_stream to setup the subscription for the ingestion workers
# on the stream that you specify which causes the data to be persisted
#--------------------------------------------------------------------------------
ingest_config_id = self.get_ingestion_config()
dataset_id = self.create_dataset(pdict_id)
self.ingestion_management.persist_data_stream(stream_id=stream_id, ingestion_configuration_id=ingest_config_id, dataset_id=dataset_id)
self.addCleanup(self.stop_ingestion, stream_id)
#--------------------------------------------------------------------------------
# Now the granules are ingesting and persisted
#--------------------------------------------------------------------------------
self.launch_producer(stream_id)
self.wait_until_we_have_enough_granules(dataset_id,40)
#--------------------------------------------------------------------------------
# Now get the data in one chunk using an RPC Call to start_retreive
#--------------------------------------------------------------------------------
replay_data = self.data_retriever.retrieve(dataset_id)
self.assertIsInstance(replay_data, Granule)
rdt = RecordDictionaryTool.load_from_granule(replay_data)
self.assertTrue((rdt['time'][:10] == np.arange(10)).all(),'%s' % rdt['time'][:])
self.assertTrue((rdt['binary'][:10] == np.array(['hi']*10, dtype='object')).all())
#--------------------------------------------------------------------------------
# Now to try the streamed approach
#--------------------------------------------------------------------------------
replay_stream_id, replay_route = self.pubsub_management.create_stream('replay_out', exchange_point=self.exchange_point_name, stream_definition_id=stream_definition)
self.replay_id, process_id = self.data_retriever.define_replay(dataset_id=dataset_id, stream_id=replay_stream_id)
log.info('Process ID: %s', process_id)
replay_client = ReplayClient(process_id)
#--------------------------------------------------------------------------------
# Create the listening endpoint for the the retriever to talk to
#--------------------------------------------------------------------------------
sub_id = self.pubsub_management.create_subscription(self.exchange_space_name,stream_ids=[replay_stream_id])
self.addCleanup(self.pubsub_management.delete_subscription, sub_id)
self.pubsub_management.activate_subscription(sub_id)
self.addCleanup(self.pubsub_management.deactivate_subscription, sub_id)
subscriber = StandaloneStreamSubscriber(self.exchange_space_name, self.validate_granule_subscription)
subscriber.start()
self.addCleanup(subscriber.stop)
self.data_retriever.start_replay_agent(self.replay_id)
self.assertTrue(replay_client.await_agent_ready(5), 'The process never launched')
replay_client.start_replay()
self.assertTrue(self.event.wait(10))
self.data_retriever.cancel_replay_agent(self.replay_id)
#--------------------------------------------------------------------------------
# Test the slicing capabilities
#--------------------------------------------------------------------------------
granule = self.data_retriever.retrieve(dataset_id=dataset_id, query={'tdoa':slice(0,5)})
rdt = RecordDictionaryTool.load_from_granule(granule)
b = rdt['time'] == np.arange(5)
self.assertTrue(b.all() if not isinstance(b,bool) else b)
def test_coverage_transform(self):
ph = ParameterHelper(self.dataset_management, self.addCleanup)
pdict_id = ph.create_parsed()
stream_def_id = self.pubsub_management.create_stream_definition('ctd parsed', parameter_dictionary_id=pdict_id)
self.addCleanup(self.pubsub_management.delete_stream_definition, stream_def_id)
stream_id, route = self.pubsub_management.create_stream('example', exchange_point=self.exchange_point_name, stream_definition_id=stream_def_id)
self.addCleanup(self.pubsub_management.delete_stream, stream_id)
ingestion_config_id = self.get_ingestion_config()
dataset_id = self.create_dataset(pdict_id)
self.ingestion_management.persist_data_stream(stream_id=stream_id, ingestion_configuration_id=ingestion_config_id, dataset_id=dataset_id)
self.addCleanup(self.ingestion_management.unpersist_data_stream, stream_id, ingestion_config_id)
publisher = StandaloneStreamPublisher(stream_id, route)
rdt = ph.get_rdt(stream_def_id)
ph.fill_parsed_rdt(rdt)
dataset_monitor = DatasetMonitor(dataset_id)
self.addCleanup(dataset_monitor.stop)
publisher.publish(rdt.to_granule())
self.assertTrue(dataset_monitor.wait())
replay_granule = self.data_retriever.retrieve(dataset_id)
rdt_out = RecordDictionaryTool.load_from_granule(replay_granule)
np.testing.assert_array_almost_equal(rdt_out['time'], rdt['time'])
np.testing.assert_array_almost_equal(rdt_out['temp'], rdt['temp'])
np.testing.assert_allclose(rdt_out['conductivity_L1'], np.array([42.914]))
np.testing.assert_allclose(rdt_out['temp_L1'], np.array([20.]))
np.testing.assert_allclose(rdt_out['pressure_L1'], np.array([3.068]))
np.testing.assert_allclose(rdt_out['density'], np.array([1021.7144739593881], dtype='float32'))
np.testing.assert_allclose(rdt_out['salinity'], np.array([30.935132729668283], dtype='float32'))
def test_ingestion_pause(self):
ctd_stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
ingestion_config_id = self.get_ingestion_config()
self.start_ingestion(ctd_stream_id, dataset_id)
self.addCleanup(self.stop_ingestion, ctd_stream_id)
rdt = RecordDictionaryTool(stream_definition_id=stream_def_id)
rdt['time'] = np.arange(10)
publisher = StandaloneStreamPublisher(ctd_stream_id, route)
monitor = DatasetMonitor(dataset_id)
self.addCleanup(monitor.stop)
publisher.publish(rdt.to_granule())
self.assertTrue(monitor.wait())
granule = self.data_retriever.retrieve(dataset_id)
self.ingestion_management.pause_data_stream(ctd_stream_id, ingestion_config_id)
monitor.event.clear()
rdt['time'] = np.arange(10,20)
publisher.publish(rdt.to_granule())
self.assertFalse(monitor.event.wait(1))
self.ingestion_management.resume_data_stream(ctd_stream_id, ingestion_config_id)
self.assertTrue(monitor.wait())
granule = self.data_retriever.retrieve(dataset_id)
rdt2 = RecordDictionaryTool.load_from_granule(granule)
np.testing.assert_array_almost_equal(rdt2['time'], np.arange(20))
def test_last_granule(self):
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
self.start_ingestion(stream_id, dataset_id)
self.addCleanup(self.stop_ingestion, stream_id)
self.publish_hifi(stream_id,route, 0)
self.publish_hifi(stream_id,route, 1)
self.wait_until_we_have_enough_granules(dataset_id,20) # I just need two
success = False
def verifier():
replay_granule = self.data_retriever.retrieve_last_data_points(dataset_id, 10)
rdt = RecordDictionaryTool.load_from_granule(replay_granule)
comp = rdt['time'] == np.arange(10) + 10
if not isinstance(comp,bool):
return comp.all()
return False
success = poll(verifier)
self.assertTrue(success)
success = False
def verify_points():
replay_granule = self.data_retriever.retrieve_last_data_points(dataset_id,5)
rdt = RecordDictionaryTool.load_from_granule(replay_granule)
comp = rdt['time'] == np.arange(15,20)
if not isinstance(comp,bool):
return comp.all()
return False
success = poll(verify_points)
self.assertTrue(success)
def test_replay_with_parameters(self):
#--------------------------------------------------------------------------------
# Create the configurations and the dataset
#--------------------------------------------------------------------------------
# Get a precompiled parameter dictionary with basic ctd fields
pdict_id = self.dataset_management.read_parameter_dictionary_by_name('ctd_parsed_param_dict',id_only=True)
context_ids = self.dataset_management.read_parameter_contexts(pdict_id, id_only=True)
# Add a field that supports binary data input.
bin_context = ParameterContext('binary', param_type=ArrayType())
context_ids.append(self.dataset_management.create_parameter_context('binary', bin_context.dump()))
# Add another field that supports dictionary elements.
rec_context = ParameterContext('records', param_type=RecordType())
context_ids.append(self.dataset_management.create_parameter_context('records', rec_context.dump()))
pdict_id = self.dataset_management.create_parameter_dictionary('replay_pdict', parameter_context_ids=context_ids, temporal_context='time')
stream_def_id = self.pubsub_management.create_stream_definition('replay_stream', parameter_dictionary_id=pdict_id)
stream_id, route = self.pubsub_management.create_stream('replay_with_params', exchange_point=self.exchange_point_name, stream_definition_id=stream_def_id)
config_id = self.get_ingestion_config()
dataset_id = self.create_dataset(pdict_id)
self.ingestion_management.persist_data_stream(stream_id=stream_id, ingestion_configuration_id=config_id, dataset_id=dataset_id)
self.addCleanup(self.stop_ingestion, stream_id)
dataset_monitor = DatasetMonitor(dataset_id)
self.addCleanup(dataset_monitor.stop)
self.publish_fake_data(stream_id, route)
self.assertTrue(dataset_monitor.wait())
query = {
'start_time': 0 - 2208988800,
'end_time': 19 - 2208988800,
'stride_time' : 2,
'parameters': ['time','temp']
}
retrieved_data = self.data_retriever.retrieve(dataset_id=dataset_id,query=query)
rdt = RecordDictionaryTool.load_from_granule(retrieved_data)
np.testing.assert_array_equal(rdt['time'], np.arange(0,20,2))
self.assertEquals(set(rdt.iterkeys()), set(['time','temp']))
extents = self.dataset_management.dataset_extents(dataset_id=dataset_id, parameters=['time','temp'])
self.assertTrue(extents['time']>=20)
self.assertTrue(extents['temp']>=20)
def test_repersist_data(self):
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
self.start_ingestion(stream_id, dataset_id)
self.publish_hifi(stream_id,route,0)
self.publish_hifi(stream_id,route,1)
self.wait_until_we_have_enough_granules(dataset_id,20)
config_id = self.get_ingestion_config()
self.ingestion_management.unpersist_data_stream(stream_id=stream_id,ingestion_configuration_id=config_id)
self.ingestion_management.persist_data_stream(stream_id=stream_id,ingestion_configuration_id=config_id,dataset_id=dataset_id)
self.addCleanup(self.stop_ingestion, stream_id)
self.publish_hifi(stream_id,route,2)
self.publish_hifi(stream_id,route,3)
self.wait_until_we_have_enough_granules(dataset_id,40)
success = False
with gevent.timeout.Timeout(5):
while not success:
replay_granule = self.data_retriever.retrieve(dataset_id)
rdt = RecordDictionaryTool.load_from_granule(replay_granule)
comp = rdt['time'] == np.arange(0,40)
if not isinstance(comp,bool):
success = comp.all()
gevent.sleep(1)
self.assertTrue(success)
@unittest.skip('deprecated')
def test_correct_time(self):
# There are 2208988800 seconds between Jan 1 1900 and Jan 1 1970, i.e.
# the conversion factor between unix and NTP time
unix_now = np.floor(time.time())
ntp_now = unix_now + 2208988800
unix_ago = unix_now - 20
ntp_ago = unix_ago + 2208988800
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
coverage = DatasetManagementService._get_simplex_coverage(dataset_id, mode='a')
coverage.insert_timesteps(20)
coverage.set_parameter_values('time', np.arange(ntp_ago,ntp_now))
temporal_bounds = self.dataset_management.dataset_temporal_bounds(dataset_id)
self.assertTrue( np.abs(temporal_bounds[0] - unix_ago) < 2)
self.assertTrue( np.abs(temporal_bounds[1] - unix_now) < 2)
@attr('LOCOINT')
@unittest.skipIf(os.getenv('CEI_LAUNCH_TEST', False), 'Host requires file-system access to coverage files, CEI mode does not support.')
def test_out_of_band_retrieve(self):
# Setup the environemnt
stream_id, route, stream_def_id, dataset_id = self.make_simple_dataset()
self.start_ingestion(stream_id, dataset_id)
# Fill the dataset
self.publish_fake_data(stream_id, route)
self.wait_until_we_have_enough_granules(dataset_id,40)
# Retrieve the data
granule = DataRetrieverService.retrieve_oob(dataset_id)
rdt = RecordDictionaryTool.load_from_granule(granule)
self.assertTrue((rdt['time'] == np.arange(40)).all())
def publish_and_wait(self, dataset_id, granule):
stream_ids, _ = self.resource_registry.find_objects(dataset_id, PRED.hasStream,id_only=True)
stream_id=stream_ids[0]
route = self.pubsub_management.read_stream_route(stream_id)
publisher = StandaloneStreamPublisher(stream_id,route)
dataset_monitor = DatasetMonitor(dataset_id)
self.addCleanup(dataset_monitor.stop)
publisher.publish(granule)
self.assertTrue(dataset_monitor.wait())
def test_sparse_values(self):
ph = ParameterHelper(self.dataset_management, self.addCleanup)
pdict_id = ph.create_sparse()
stream_def_id = self.pubsub_management.create_stream_definition('sparse', parameter_dictionary_id=pdict_id)
self.addCleanup(self.pubsub_management.delete_stream_definition, stream_def_id)
stream_id, route = self.pubsub_management.create_stream('example', exchange_point=self.exchange_point_name, stream_definition_id=stream_def_id)
self.addCleanup(self.pubsub_management.delete_stream, stream_id)
dataset_id = self.create_dataset(pdict_id)
self.start_ingestion(stream_id,dataset_id)
self.addCleanup(self.stop_ingestion, stream_id)
# Publish initial granule
# the first one has the sparse value set inside it, sets lat to 45 and lon to -71
ntp_now = time.time() + 2208988800
rdt = ph.get_rdt(stream_def_id)
rdt['time'] = [ntp_now]
rdt['internal_timestamp'] = [ntp_now]
rdt['temp'] = [300000]
rdt['preferred_timestamp'] = ['driver_timestamp']
rdt['port_timestamp'] = [ntp_now]
rdt['quality_flag'] = ['']
rdt['lat'] = [45]
rdt['conductivity'] = [4341400]
rdt['driver_timestamp'] = [ntp_now]
rdt['lon'] = [-71]
rdt['pressure'] = [256.8]
publisher = StandaloneStreamPublisher(stream_id, route)
dataset_monitor = DatasetMonitor(dataset_id)
self.addCleanup(dataset_monitor.stop)
publisher.publish(rdt.to_granule())
self.assertTrue(dataset_monitor.wait())
dataset_monitor.reset()
replay_granule = self.data_retriever.retrieve(dataset_id)
rdt_out = RecordDictionaryTool.load_from_granule(replay_granule)
# Check the values and make sure they're correct
np.testing.assert_allclose(rdt_out['time'], rdt['time'])
np.testing.assert_allclose(rdt_out['temp'], rdt['temp'])
np.testing.assert_allclose(rdt_out['lat'], np.array([45]))
np.testing.assert_allclose(rdt_out['lon'], np.array([-71]))
np.testing.assert_allclose(rdt_out['conductivity_L1'], np.array([42.914]))
np.testing.assert_allclose(rdt_out['temp_L1'], np.array([20.]))
np.testing.assert_allclose(rdt_out['pressure_L1'], np.array([3.068]))
np.testing.assert_allclose(rdt_out['density'], np.array([1021.7144739593881], dtype='float32'))
np.testing.assert_allclose(rdt_out['salinity'], np.array([30.935132729668283], dtype='float32'))
# We're going to change the lat/lon
rdt = ph.get_rdt(stream_def_id)
rdt['time'] = time.time() + 2208988800
rdt['lat'] = [46]
rdt['lon'] = [-73]
publisher.publish(rdt.to_granule())
self.assertTrue(dataset_monitor.wait())
dataset_monitor.reset()
replay_granule = self.data_retriever.retrieve(dataset_id)
rdt_out = RecordDictionaryTool.load_from_granule(replay_granule)
np.testing.assert_allclose(rdt_out['time'], rdt['time'])
for i in xrange(9):
ntp_now = time.time() + 2208988800
rdt['time'] = [ntp_now]
rdt['internal_timestamp'] = [ntp_now]
rdt['temp'] = [300000]
rdt['preferred_timestamp'] = ['driver_timestamp']
rdt['port_timestamp'] = [ntp_now]
rdt['quality_flag'] = [None]
rdt['conductivity'] = [4341400]
rdt['driver_timestamp'] = [ntp_now]
rdt['pressure'] = [256.8]
publisher.publish(rdt.to_granule())
self.assertTrue(dataset_monitor.wait())
dataset_monitor.reset()
replay_granule = self.data_retriever.retrieve(dataset_id)
rdt_out = RecordDictionaryTool.load_from_granule(replay_granule)
np.testing.assert_allclose(rdt_out['pressure'], np.array([256.8] * 10))
np.testing.assert_allclose(rdt_out['lat'], np.array([45] + [46] * 9))
np.testing.assert_allclose(rdt_out['lon'], np.array([-71] + [-73] * 9))
class TestDMEnd2End(IonIntegrationTestCase):
def setUp(self): # Love the non pep-8 convention
self._start_container()
self.container.start_rel_from_url("res/deploy/r2deploy.yml")
self.process_dispatcher = ProcessDispatcherServiceClient()
self.pubsub_management = PubsubManagementServiceClient()
self.resource_registry = ResourceRegistryServiceClient()
self.dataset_management = DatasetManagementServiceClient()
self.ingestion_management = IngestionManagementServiceClient()
self.data_retriever = DataRetrieverServiceClient()
self.pids = []
self.event = Event()
self.exchange_space_name = "test_granules"
self.exchange_point_name = "science_data"
self.purge_queues()
def purge_queues(self):
xn = self.container.ex_manager.create_xn_queue("science_granule_ingestion")
xn.purge()
def tearDown(self):
self.purge_queues()
for pid in self.pids:
self.process_dispatcher.cancel_process(pid)
IngestionManagementIntTest.clean_subscriptions()
def launch_producer(self, stream_id=""):
# --------------------------------------------------------------------------------
# Create the process definition for the producer
# --------------------------------------------------------------------------------
producer_definition = ProcessDefinition(name="Example Data Producer")
producer_definition.executable = {
"module": "ion.processes.data.example_data_producer",
"class": "BetterDataProducer",
}
process_definition_id = self.process_dispatcher.create_process_definition(
process_definition=producer_definition
)
# --------------------------------------------------------------------------------
# Launch the producer
# --------------------------------------------------------------------------------
config = DotDict()
config.process.stream_id = stream_id
pid = self.process_dispatcher.schedule_process(
process_definition_id=process_definition_id, configuration=config
)
self.pids.append(pid)
def get_ingestion_config(self):
# --------------------------------------------------------------------------------
# Grab the ingestion configuration from the resource registry
# --------------------------------------------------------------------------------
# The ingestion configuration should have been created by the bootstrap service
# which is configured through r2deploy.yml
ingest_configs, _ = self.resource_registry.find_resources(restype=RT.IngestionConfiguration, id_only=True)
return ingest_configs[0]
def publish_hifi(self, stream_id, offset=0):
pub = SimpleStreamPublisher.new_publisher(self.container, self.exchange_point_name, stream_id)
black_box = CoverageCraft()
black_box.rdt["time"] = np.arange(10) + (offset * 10)
black_box.rdt["temp"] = (np.arange(10) + (offset * 10)) * 2
granule = black_box.to_granule()
pub.publish(granule)
def publish_fake_data(self, stream_id):
for i in xrange(4):
self.publish_hifi(stream_id, i)
def get_datastore(self, dataset_id):
dataset = self.dataset_management.read_dataset(dataset_id)
datastore_name = dataset.datastore_name
datastore = self.container.datastore_manager.get_datastore(datastore_name, DataStore.DS_PROFILE.SCIDATA)
return datastore
def validate_granule_subscription(self, msg, header):
if msg == {}:
return
self.assertIsInstance(msg, Granule, "Message is improperly formatted. (%s)" % type(msg))
self.event.set()
def wait_until_we_have_enough_granules(self, dataset_id="", granules=4):
datastore = self.get_datastore(dataset_id)
dataset = self.dataset_management.read_dataset(dataset_id)
now = time.time()
timeout = now + 10
done = False
while not done:
if now >= timeout:
raise Timeout("Granules are not populating in time.")
if len(datastore.query_view(dataset.view_name)) >= granules:
done = True
now = time.time()
def create_dataset(self):
craft = CoverageCraft
sdom, tdom = craft.create_domains()
sdom = sdom.dump()
tdom = tdom.dump()
pdict = craft.create_parameters()
pdict = pdict.dump()
dataset_id = self.dataset_management.create_dataset(
"test_dataset", parameter_dict=pdict, spatial_domain=sdom, temporal_domain=tdom
)
return dataset_id
def test_coverage_ingest(self):
stream_id = self.pubsub_management.create_stream()
dataset_id = self.create_dataset()
# I freaking hate this bug
self.get_datastore(dataset_id)
ingestion_config_id = self.get_ingestion_config()
self.ingestion_management.persist_data_stream(
stream_id=stream_id, ingestion_configuration_id=ingestion_config_id, dataset_id=dataset_id
)
black_box = CoverageCraft()
black_box.rdt["time"] = np.arange(20)
black_box.rdt["temp"] = np.random.random(20) * 10
black_box.sync_with_granule()
granule = black_box.to_granule()
publisher = SimpleStreamPublisher.new_publisher(self.container, self.exchange_point_name, stream_id)
publisher.publish(granule)
self.wait_until_we_have_enough_granules(dataset_id, 1)
coverage = DatasetManagementService._get_coverage(dataset_id)
black_box = CoverageCraft(coverage)
black_box.sync_rdt_with_coverage()
comp = black_box.rdt["time"] == np.arange(20)
self.assertTrue(comp.all())
black_box = CoverageCraft()
black_box.rdt["time"] = np.arange(20) + 20
black_box.rdt["temp"] = np.random.random(20) * 10
black_box.sync_with_granule()
granule = black_box.to_granule()
publisher.publish(granule)
self.wait_until_we_have_enough_granules(dataset_id, 2)
coverage = DatasetManagementService._get_coverage(dataset_id)
black_box = CoverageCraft(coverage)
black_box.sync_rdt_with_coverage()
comp = black_box.rdt["time"] == np.arange(40)
self.assertTrue(comp.all())
granule = self.data_retriever.retrieve(dataset_id)
black_box = CoverageCraft()
black_box.sync_rdt_with_granule(granule)
comp = black_box.rdt["time"] == np.arange(40)
self.assertTrue(comp.all())
@attr("SMOKE")
def test_dm_end_2_end(self):
# --------------------------------------------------------------------------------
# Set up a stream and have a mock instrument (producer) send data
# --------------------------------------------------------------------------------
stream_id = self.pubsub_management.create_stream()
self.launch_producer(stream_id)
# --------------------------------------------------------------------------------
# Start persisting the data on the stream
# - Get the ingestion configuration from the resource registry
# - Create the dataset
# - call persist_data_stream to setup the subscription for the ingestion workers
# on the stream that you specify which causes the data to be persisted
# --------------------------------------------------------------------------------
ingest_config_id = self.get_ingestion_config()
dataset_id = self.create_dataset()
self.ingestion_management.persist_data_stream(
stream_id=stream_id, ingestion_configuration_id=ingest_config_id, dataset_id=dataset_id
)
# --------------------------------------------------------------------------------
# Now the granules are ingesting and persisted
# --------------------------------------------------------------------------------
self.wait_until_we_have_enough_granules(dataset_id, 4)
# --------------------------------------------------------------------------------
# Now get the data in one chunk using an RPC Call to start_retreive
# --------------------------------------------------------------------------------
replay_data = self.data_retriever.retrieve(dataset_id)
self.assertIsInstance(replay_data, Granule)
# --------------------------------------------------------------------------------
# Now to try the streamed approach
# --------------------------------------------------------------------------------
replay_id, stream_id = self.data_retriever.define_replay(dataset_id)
# --------------------------------------------------------------------------------
# Create the listening endpoint for the the retriever to talk to
# --------------------------------------------------------------------------------
xp = self.container.ex_manager.create_xp(self.exchange_point_name)
xn = self.container.ex_manager.create_xn_queue(self.exchange_space_name)
xn.bind("%s.data" % stream_id, xp)
subscriber = SimpleStreamSubscriber.new_subscriber(
self.container, self.exchange_space_name, self.validate_granule_subscription
)
subscriber.start()
self.data_retriever.start_replay(replay_id)
fail = False
try:
self.event.wait(10)
except gevent.Timeout:
fail = True
subscriber.stop()
self.assertTrue(not fail, "Failed to validate the data.")
def test_replay_by_time(self):
log.info("starting test...")
# --------------------------------------------------------------------------------
# Create the necessary configurations for the test
# --------------------------------------------------------------------------------
stream_id = self.pubsub_management.create_stream()
config_id = self.get_ingestion_config()
dataset_id = self.create_dataset()
self.ingestion_management.persist_data_stream(
stream_id=stream_id, ingestion_configuration_id=config_id, dataset_id=dataset_id
)
# --------------------------------------------------------------------------------
# Create the datastore first,
# --------------------------------------------------------------------------------
# There is a race condition sometimes between the services and the process for
# the creation of the datastore and it's instance, this ensures the datastore
# exists before the process is even subscribing to data.
self.get_datastore(dataset_id)
self.publish_fake_data(stream_id)
self.wait_until_we_have_enough_granules(dataset_id, 2) # I just need two
replay_granule = self.data_retriever.retrieve(dataset_id, {"start_time": 0, "end_time": 6})
rdt = RecordDictionaryTool.load_from_granule(replay_granule)
comp = rdt["time"] == np.array([0, 1, 2, 3, 4, 5])
try:
log.info("Compared granule: %s", replay_granule.__dict__)
log.info("Granule tax: %s", replay_granule.taxonomy.__dict__)
except:
pass
self.assertTrue(comp.all())
def test_last_granule(self):
# --------------------------------------------------------------------------------
# Create the necessary configurations for the test
# --------------------------------------------------------------------------------
stream_id = self.pubsub_management.create_stream()
config_id = self.get_ingestion_config()
dataset_id = self.create_dataset()
self.ingestion_management.persist_data_stream(
stream_id=stream_id, ingestion_configuration_id=config_id, dataset_id=dataset_id
)
# --------------------------------------------------------------------------------
# Create the datastore first,
# --------------------------------------------------------------------------------
self.get_datastore(dataset_id)
self.publish_hifi(stream_id, 0)
self.publish_hifi(stream_id, 1)
self.wait_until_we_have_enough_granules(dataset_id, 2) # I just need two
replay_granule = self.data_retriever.retrieve_last_granule(dataset_id)
rdt = RecordDictionaryTool.load_from_granule(replay_granule)
comp = rdt["time"] == np.arange(10) + 10
self.assertTrue(comp.all())
def test_replay_with_parameters(self):
# --------------------------------------------------------------------------------
# Create the configurations and the dataset
# --------------------------------------------------------------------------------
stream_id = self.pubsub_management.create_stream()
config_id = self.get_ingestion_config()
dataset_id = self.create_dataset()
self.ingestion_management.persist_data_stream(
stream_id=stream_id, ingestion_configuration_id=config_id, dataset_id=dataset_id
)
# --------------------------------------------------------------------------------
# Coerce the datastore into existence (beats race condition)
# --------------------------------------------------------------------------------
self.get_datastore(dataset_id)
self.launch_producer(stream_id)
self.wait_until_we_have_enough_granules(dataset_id, 4)
query = {"start_time": 0, "end_time": 20, "parameters": ["time", "temp"]}
retrieved_data = self.data_retriever.retrieve(dataset_id=dataset_id, query=query)
rdt = RecordDictionaryTool.load_from_granule(retrieved_data)
comp = np.arange(20) == rdt["time"]
self.assertTrue(comp.all(), "%s" % rdt.pretty_print())
self.assertEquals(set(rdt.iterkeys()), set(["time", "temp"]))
def test_repersist_data(self):
stream_id = self.pubsub_management.create_stream()
config_id = self.get_ingestion_config()
dataset_id = self.create_dataset()
self.ingestion_management.persist_data_stream(
stream_id=stream_id, ingestion_configuration_id=config_id, dataset_id=dataset_id
)
self.get_datastore(dataset_id)
self.publish_hifi(stream_id, 0)
self.publish_hifi(stream_id, 1)
self.wait_until_we_have_enough_granules(dataset_id, 2)
self.ingestion_management.unpersist_data_stream(stream_id=stream_id, ingestion_configuration_id=config_id)
self.ingestion_management.persist_data_stream(
stream_id=stream_id, ingestion_configuration_id=config_id, dataset_id=dataset_id
)
self.publish_hifi(stream_id, 2)
self.publish_hifi(stream_id, 3)
self.wait_until_we_have_enough_granules(dataset_id, 4)
retrieved_granule = self.data_retriever.retrieve(dataset_id)
rdt = RecordDictionaryTool.load_from_granule(retrieved_granule)
comp = rdt["time"] == np.arange(0, 40)
self.assertTrue(comp.all(), "Uh-oh: %s" % rdt["time"])
