class TestIngesterFunctionality(unittest.TestCase):
"""This set of tests test the actual functioning of the service.
"""
def setUp(self):
self.auth = CredentialsAuthentication("casey", "password")
self.ingester_platform = IngesterPlatformAPI("http://localhost:8080/api", self.auth)
self.cleanup_files = []
def test_pull_ingest_functionality(self):
loc = Location(10.0, 11.0, "Test Site", 100, None)
loc = self.ingester_platform.post(loc)
file_schema = DataEntrySchema()
file_schema.addAttr(FileDataType("file"))
file_schema = self.ingester_platform.post(file_schema)
dataset = Dataset(location=loc.id, schema=file_schema.id, data_source=PullDataSource("http://www.bom.gov.au/radar/IDR733.gif", "file", sampling=PeriodicSampling(10000)))
dataset1 = self.ingester_platform.post(dataset)
self.assertEquals(dataset1.location, dataset.location, "Location ID does not match")
self.assertEquals(dataset1.schema, dataset.schema, "schema does not match")
self.ingester_platform.disableDataset(dataset1.id)
dataset1a = self.ingester_platform.getDataset(dataset1.id)
self.assertEquals(dataset1a.enabled, False)
def tearDown(self):
self.ingester_platform.reset()
class CLIClient(object):
def __init__(self, server):
self.client = IngesterPlatformAPI(server, None)
def file_or_json(self, s):
"""Try to open the file or parse the string as JSON"""
obj = None
if os.path.exists(s):
with open(r, "r") as f:
obj = json.load(f)
else:
obj = json.loads(s)
return self.client._marshaller.dict_to_obj(obj)
def ping(self):
return self.client.ping()
def enable(self, ds_id):
return self.client.enableDataset(ds_id)
def disable(self, ds_id):
return self.client.disableDataset(ds_id)
def search(self, criteria, limit=20, offset=0):
return self.client._marshaller.obj_to_dict(
self.client.search(self.file_or_json(criteria), int(offset),
int(limit)))
def logs(self, ds_id):
return self.client._marshaller.obj_to_dict(
self.client.getIngesterLogs(ds_id))
def post(self, s):
obj = self.file_or_json(s)
return (self.client._marshaller.obj_to_dict(self.client.post(obj)))
def get(self, *args):
if args[0] == "schema":
return (self.client.getSchema(args[1]))
elif args[0] == "location":
return (self.client.getLocation(args[1]))
elif args[0] == "dataset":
return (self.client.getDataset(args[1]))
class CLIClient(object):
def __init__(self, server):
self.client = IngesterPlatformAPI(server, None)
def file_or_json(self, s):
"""Try to open the file or parse the string as JSON"""
obj = None
if os.path.exists(s):
with open(r, "r") as f:
obj = json.load(f)
else:
obj = json.loads(s)
return self.client._marshaller.dict_to_obj(obj)
def ping(self):
return self.client.ping()
def enable(self, ds_id):
return self.client.enableDataset(ds_id)
def disable(self, ds_id):
return self.client.disableDataset(ds_id)
def search(self, criteria, limit=20, offset=0):
return self.client._marshaller.obj_to_dict(self.client.search(self.file_or_json(criteria), int(offset), int(limit)))
def logs(self, ds_id):
return self.client._marshaller.obj_to_dict(self.client.getIngesterLogs(ds_id))
def post(self, s):
obj = self.file_or_json(s)
return (self.client._marshaller.obj_to_dict(self.client.post(obj)))
def get(self, *args):
if args[0] == "schema":
return (self.client.getSchema(args[1]))
elif args[0] == "location":
return (self.client.getLocation(args[1]))
elif args[0] == "dataset":
return (self.client.getDataset(args[1]))
class TestIngesterFunctionality(unittest.TestCase):
"""This set of tests test the actual functioning of the service.
"""
def setUp(self):
self.auth = CredentialsAuthentication("casey", "password")
self.ingester_platform = IngesterPlatformAPI(
"http://localhost:8080/api", self.auth)
self.cleanup_files = []
def test_pull_ingest_functionality(self):
loc = Location(10.0, 11.0, "Test Site", 100, None)
loc = self.ingester_platform.post(loc)
file_schema = DataEntrySchema()
file_schema.addAttr(FileDataType("file"))
file_schema = self.ingester_platform.post(file_schema)
dataset = Dataset(location=loc.id,
schema=file_schema.id,
data_source=PullDataSource(
"http://www.bom.gov.au/radar/IDR733.gif",
"file",
sampling=PeriodicSampling(10000)))
dataset1 = self.ingester_platform.post(dataset)
self.assertEquals(dataset1.location, dataset.location,
"Location ID does not match")
self.assertEquals(dataset1.schema, dataset.schema,
"schema does not match")
self.ingester_platform.disableDataset(dataset1.id)
dataset1a = self.ingester_platform.getDataset(dataset1.id)
self.assertEquals(dataset1a.enabled, False)
def tearDown(self):
self.ingester_platform.reset()
from jcudc24ingesterapi.models.data_entry import DataEntry
from jcudc24ingesterapi.ingester_platform_api import IngesterPlatformAPI
from jcudc24ingesterapi.authentication import CredentialsAuthentication
from jcudc24ingesterapi.models.metadata import MetadataEntry
from jcudc24ingesterapi.schemas.metadata_schemas import DataEntryMetadataSchema, DatasetMetadataSchema
from jcudc24ingesterapi.models.sampling import RepeatSampling, PeriodicSampling, CustomSampling
from jcudc24ingesterapi.ingester_exceptions import UnsupportedSchemaError, InvalidObjectError, UnknownObjectError, AuthenticationError
from jcudc24ingesterapi.schemas.data_entry_schemas import DataEntrySchema
if len(sys.argv) > 1:
tree_url = sys.argv[1]
else:
tree_url = "http://emu.hpc.jcu.edu.au/tree/split/"
auth = CredentialsAuthentication("casey", "password")
ingester_platform = IngesterPlatformAPI("http://localhost:8080/api", auth)
# Setup the file storage schema
file_schema = DataEntrySchema("arduino_file")
file_schema.addAttr(FileDataType("file"))
file_schema = ingester_platform.post(file_schema)
temp_schema = DataEntrySchema("temperature_reading")
temp_schema.addAttr(Double("temp"))
temp_schema = ingester_platform.post(temp_schema)
# Setup the location
loc = Location(-19.34427, 146.784197, "Mt Stuart", 100, None)
loc = ingester_platform.post(loc)
# Create the dataset to store the data in
def __init__(self, server):
self.client = IngesterPlatformAPI(server, None)
def setUp(self):
self.auth = CredentialsAuthentication("casey", "password")
self.ingester_platform = IngesterPlatformAPI("http://localhost:8080/api", self.auth)
self.cleanup_files = []
class TestIngesterPersistence(unittest.TestCase):
"""This set of tests checks that the CRUD functionality works as expected
"""
def setUp(self):
self.auth = CredentialsAuthentication("casey", "password")
self.ingester_platform = IngesterPlatformAPI("http://localhost:8080/api", self.auth)
self.cleanup_files = []
def test_region_persistence(self):
project_region = Region("Test Region", ((1, 1), (2, 2),(2,1), (1,1)))
project_region1 = self.ingester_platform.post(project_region)
self.assertNotEqual(project_region1.id, None, "ID should have been set")
def test_location_persistence(self):
loc = Location(10.0, 11.0, "Test Site", 100, None)
loc1 = self.ingester_platform.post(loc)
self.assertNotEqual(loc1.id, None, "ID should have been set")
self.assertEqual(loc.latitude, loc1.latitude, "latitude does not match")
self.assertEqual(loc.longitude, loc1.longitude, "longitude does not match")
self.assertEqual(loc.elevation, loc1.elevation, "elevation does not match")
self.assertEqual(loc.name, loc1.name, "name does not match")
locs = self.ingester_platform.search(LocationSearchCriteria(),0 , 10).results
self.assertEquals(1, len(locs))
# Now update the location
loc1.name = "The Test Site"
loc1.latitude = -19.0
# Test that the version check is observed
self.assertEquals(1, loc1.version)
loc1.version = 0
self.assertRaises(StaleObjectError, self.ingester_platform.post, loc1)
loc1.version = 1
loc2 = self.ingester_platform.post(loc1)
self.assertEqual(loc1.id, loc2.id, "")
self.assertEqual(loc1.latitude, loc2.latitude, "latitude does not match")
self.assertEqual(loc1.longitude, loc2.longitude, "longitude does not match")
self.assertEqual(loc1.elevation, loc2.elevation, "elevation does not match")
self.assertEqual(loc1.name, loc2.name, "name does not match")
def test_dataset_persistence(self):
loc = Location(10.0, 11.0, "Test Site", 100, None)
loc = self.ingester_platform.post(loc)
self.assertIsNotNone(loc, "Location should not be none")
self.assertIsNotNone(loc.id, "Location should not be none")
file_schema = DataEntrySchema()
file_schema.addAttr(FileDataType("file"))
file_schema = self.ingester_platform.post(file_schema)
script_contents = """Some Script
More"""
dataset = Dataset(location=loc.id, schema=file_schema.id, data_source=PullDataSource("http://www.bom.gov.au/radar/IDR733.gif", "file", processing_script=script_contents), location_offset=LocationOffset(0, 1, 2))
dataset1 = self.ingester_platform.post(dataset)
self.assertIsNotNone(dataset1, "Dataset should not be none")
self.assertEquals(dataset1.location, dataset.location, "Location ID does not match")
self.assertEquals(dataset1.schema, dataset.schema, "schema does not match %d!=%d"%(dataset1.schema, dataset.schema))
self.assertEquals(dataset1.location_offset.x, 0)
self.assertEquals(dataset1.location_offset.y, 1)
self.assertEquals(dataset1.location_offset.z, 2)
self.assertEquals(script_contents, dataset1.data_source.processing_script)
datasets = self.ingester_platform.findDatasets()
self.assertEquals(1, len(datasets))
datasets = self.ingester_platform.findDatasets(location=loc.id)
self.assertEquals(1, len(datasets))
data_entry_schemas = self.ingester_platform.search(DataEntrySchemaSearchCriteria(),0 , 10).results
self.assertEquals(1, len(data_entry_schemas))
datasets = self.ingester_platform.search(DatasetSearchCriteria(),0 , 10).results
self.assertEquals(1, len(datasets))
def test_schema_persistence(self):
file_schema = DataEntrySchema()
file_schema.addAttr(FileDataType("file"))
self.ingester_platform.post(file_schema)
def test_unit_of_work_persistence(self):
unit = self.ingester_platform.createUnitOfWork()
loc = Location(10.0, 11.0, "Test Site", 100, None)
unit.insert(loc)
self.assertIsNotNone(loc.id)
file_schema = DataEntrySchema()
file_schema.name = "File Schema"
file_schema.addAttr(FileDataType("file"))
file_schema_id = unit.insert(file_schema)
self.assertIsNotNone(file_schema_id, "Schema ID should not be null")
dataset = Dataset(location=loc.id, schema=file_schema.id, data_source=PullDataSource("http://www.bom.gov.au/radar/IDR733.gif", "file"))
unit.insert(dataset)
# Persist all the objects
unit.commit()
self.assertIsNotNone(loc, "Location should not be none")
self.assertIsNotNone(loc.id, "Location should not be none")
self.assertGreater(loc.id, 0, "Location ID not real")
self.assertEqual(loc.name, "Test Site", "Location name doesn't match")
self.assertIsNotNone(dataset, "dataset should not be none")
self.assertIsNotNone(dataset.id, "dataset should not be none")
self.assertGreater(dataset.id, 0, "dataset ID not real")
def tearDown(self):
self.ingester_platform.reset()
class SchemaTest(unittest.TestCase):
"""
This test defines and checks that the Ingester API works the way the provisioning interface expects.
"""
def setUp(self):
self.auth = CredentialsAuthentication("casey", "password")
self.ingester_platform = IngesterPlatformAPI("http://localhost:8080/api", self.auth)
self.schemas = []
def compare_schema_attrs(self, attrs_src, attrs_dst):
# make a copy
attrs_dst = attrs_dst.copy()
for attr in attrs_src:
found = False
for attr_dst in attrs_dst:
if attr in attrs_dst:
del attrs_dst[attr]
found = True
break
self.assertTrue(found, "Attribute not found "+attr)
self.assertEquals(0, len(attrs_dst), "Extra attributes in destination")
def test_data_metadata(self):
work = self.ingester_platform.createUnitOfWork()
schema = DataEntryMetadataSchema("Quality Assurance")
schema.addAttr(Double("value"))
schema.addAttr(String("description"))
work.post(schema)
work.commit()
self.schemas.append(schema)
ingested_schema = self.ingester_platform.getSchema(schema.id)
self.compare_schema_attrs(ingested_schema.attrs, schema.attrs)
self.assertEquals(ingested_schema.name, schema.name)
def test_dataset_metadata(self):
work = self.ingester_platform.createUnitOfWork()
schema = DatasetMetadataSchema("Dataset Calibration")
schema.addAttr(DateTime("date"))
schema.addAttr(String("description"))
work.post(schema)
work.commit()
self.schemas.append(schema)
ingested_schema = self.ingester_platform.getSchema(schema.id)
self.compare_schema_attrs(ingested_schema.attrs, schema.attrs)
self.assertEquals(ingested_schema.name, schema.name)
def test_data(self):
work = self.ingester_platform.createUnitOfWork()
schema = DataEntrySchema("Test123")
schema.addAttr(Double("value"))
schema.addAttr(String("description"))
work.post(schema)
work.commit()
self.schemas.append(schema)
ingested_schema = self.ingester_platform.getSchema(schema.id)
self.compare_schema_attrs(ingested_schema.attrs, schema.attrs)
self.assertEquals(ingested_schema.name, schema.name)
def test_dup_data(self):
work = self.ingester_platform.createUnitOfWork()
schema = DataEntrySchema("Test123")
schema.addAttr(Double("value"))
schema.addAttr(String("description"))
work.post(schema)
work.commit()
self.schemas.append(schema)
def test_delete(self):
work = self.ingester_platform.createUnitOfWork()
for schema in self.schemas:
work.delete(schema)
work.commit()
for schema in self.schemas:
self.assertIsNone(self.ingester_platform.getSchema(schema.id))
def tearDown(self):
self.ingester_platform.close()
class ProvisioningInterfaceTest(unittest.TestCase):
"""
This test defines and checks that the Ingester API works the way the provisioning interface expects.
"""
def setUp(self):
self.auth = CredentialsAuthentication("casey", "password")
self.ingester_platform = IngesterPlatformAPI("http://localhost:8080/api", self.auth)
self.cleanup_files = []
def test_api_usage(self):
# User data that is created by filling out the provisioning interface workflow steps.
# General
title = "Test project"
data_manager = "A Person"
project_lead = "Another Person"
# Metadata
project_region = Region("Test Region", ((1, 1), (2, 2),(2,1), (1,1)))
# Methods & Datasets
loc1 = Location(11.0, 11.0, "Test Site", 100)
loc2 = Location(11.0, 11.0, "Test Site", 100)
loc3 = Location(12.0, 11.0, "Test Site", 100)
temp_work = self.ingester_platform.createUnitOfWork()
temperature_schema = DataEntrySchema("Test Temp Schema")
temperature_schema.addAttr(Double("temperature"))
temp_work.post(temperature_schema)
temp_work.commit()
air_temperature_schema = DataEntrySchema("Air Temp Schema")
air_temperature_schema.extends = [temperature_schema.id]
air_temperature_schema = self.ingester_platform.post(air_temperature_schema)
second_level_inheritence_schema = DataEntrySchema("Second Inheritence")
second_level_inheritence_schema.extends = [air_temperature_schema.id]
second_level_inheritence_schema = self.ingester_platform.post(second_level_inheritence_schema)
# Check the name is set
temperature_schema_1 = self.ingester_platform.getSchema(temperature_schema.id)
self.assertIsNotNone(temperature_schema.name)
self.assertEquals(temperature_schema.name, temperature_schema_1.name)
file_schema = DataEntrySchema()
file_schema.addAttr(FileDataType("file"))
file_schema = self.ingester_platform.post(file_schema)
dataset1 = Dataset(location=None, schema=temperature_schema.id)
dataset2 = Dataset(location=None, schema=file_schema.id, data_source=PullDataSource("http://test.com", "file_handle", processing_script="file://d:/processing_scripts/awsome_processing.py"))
# dataset3 = Dataset(None, file_schema, PullDataSource("http://test.com", "file_handle"), CustomSampling("file://d:/sampling_scripts/awsome_sampling.py"), "file://d:/processing_scripts/awsome_processing.py")
self.cleanup_files.append(dataset2.data_source.processing_script)
# self.cleanup_files.push(dataset3.sampling.script)
# self.cleanup_files.push(dataset3.processing_script)
# Provisioning admin accepts the submitted project
work = self.ingester_platform.createUnitOfWork()
work.post(project_region) # Save the region
loc1.region = project_region.id # Set the datasets location to use the projects region
work.post(loc1) # Save the location
dataset1.location = loc1.id # Set the datasets location
work.post(dataset1) # Save the dataset
loc2.region = project_region.id
work.post(loc2)
dataset2.location = loc2.id
work.post(dataset2)
work.commit()
# Region, location and dataset id's will be saved to the project within the provisioning system in some way
# User searches for datasets
# TODO: Nigel? - Define searching api
found_dataset_id = dataset1.id # The dataset that has an extended file schema
# User manually enters data
timestamp = datetime.datetime.now()
data_entry_1 = DataEntry(found_dataset_id, timestamp)
data_entry_1['temperature'] = 27.8 # Add the extended schema items
data_entry_1 = self.ingester_platform.post(data_entry_1)
self.assertIsNotNone(data_entry_1.id)
timestamp2 = timestamp + datetime.timedelta(seconds=1)
data_entry_2 = DataEntry(found_dataset_id, timestamp2)
data_entry_2['temperature'] = 27.8 # Add the extended schema items
data_entry_2 = self.ingester_platform.post(data_entry_2)
self.assertEquals(2, len(self.ingester_platform.search(DataEntrySearchCriteria(found_dataset_id), 0, 10).results))
result = self.ingester_platform.search(DataEntrySearchCriteria(found_dataset_id), 0, 1)
self.assertEquals(2, result.count)
self.assertEquals(1, len(result.results))
self.assertEquals(1, len(self.ingester_platform.search(DataEntrySearchCriteria(found_dataset_id), 1, 1).results))
result = self.ingester_platform.search(DataEntrySearchCriteria(found_dataset_id), 2, 1)
self.assertEquals(0, len(result.results))
self.assertEquals(0, len(self.ingester_platform.search(DataEntrySearchCriteria(found_dataset_id,
end_time=timestamp-datetime.timedelta(seconds=60)), 0, 10).results))
self.assertEquals(0, len(self.ingester_platform.search(DataEntrySearchCriteria(found_dataset_id,
start_time=timestamp+datetime.timedelta(seconds=60)), 0, 10).results))
self.assertEquals(2, len(self.ingester_platform.search(DataEntrySearchCriteria(found_dataset_id,
start_time=timestamp-datetime.timedelta(seconds=60),
end_time=timestamp+datetime.timedelta(seconds=60)), 0, 10).results))
work = self.ingester_platform.createUnitOfWork()
data_entry_3 = DataEntry(dataset2.id, datetime.datetime.now())
data_entry_3['file'] = FileObject(f_handle=open(os.path.join(
os.path.dirname(jcudc24ingesterapi.__file__), "tests/test_ingest.xml")),
mime_type="text/xml")
work.post(data_entry_3)
work.commit()
self.assertIsNotNone(data_entry_3.id)
f_in = self.ingester_platform.getDataEntryStream(dataset2.id, data_entry_3.id, "file")
self.assertIsNotNone(f_in)
data = f_in.read()
f_in.close()
self.assertLess(0, len(data), "Expected data in file")
# User enters quality assurance metadata
quality_metadata_schema = DatasetMetadataSchema()
quality_metadata_schema.addAttr(String("unit"))
quality_metadata_schema.addAttr(String("description"))
quality_metadata_schema.addAttr(Double("value"))
quality_metadata_schema = self.ingester_platform.post(quality_metadata_schema)
entered_metadata = DatasetMetadataEntry(data_entry_1.dataset, quality_metadata_schema.id)
entered_metadata['unit'] = "%"
entered_metadata['description'] = "Percent error"
entered_metadata['value'] = 0.98
entered_metadata = self.ingester_platform.post(entered_metadata)
# Now find that metadata
results = self.ingester_platform.search(DatasetMetadataSearchCriteria(data_entry_1.dataset),0 , 10).results
self.assertEqual(1, len(results))
data_entry_md_schema = DataEntryMetadataSchema("test")
data_entry_md_schema.addAttr(String("description"))
data_entry_md_schema.addAttr(Double("value"))
data_entry_md_schema = self.ingester_platform.post(data_entry_md_schema)
calibration = DataEntryMetadataEntry(metadata_schema_id=int(data_entry_md_schema.id), dataset_id=dataset2.id, object_id=data_entry_3.id)
calibration["description"] = "Test"
calibration["value"] = 1.2
calibration2 = DataEntryMetadataEntry(metadata_schema_id=int(data_entry_md_schema.id), dataset_id=dataset2.id, object_id=data_entry_3.id)
calibration2["description"] = "Test2"
calibration2["value"] = 2.3
calibration2 = self.ingester_platform.post(calibration2)
calibrations = self.ingester_platform.search(DataEntryMetadataSearchCriteria(int(81), int(3648)), offset=0, limit=1000)
self.assertEquals(1, len(calibrations.results))
self.assertEquals(calibrations.results[0].schema_id, data_entry_md_schema.id)
self.ingester_platform.delete(calibration2)
self.ingester_platform.delete(calibration)
self.ingester_platform.delete(data_entry_md_schema)
# User changes sampling rate
# FIXME: This test is going to be changed to be done by editing the dataset
# sampling_rate_changed = Metadata(dataset1.id, type(dataset1), SampleRateMetadataSchema())
# sampling_rate_changed.change_time = datetime.datetime.now().strftime("%Y-%m-%d %H:%M")
# sampling_rate_changed.sampling = CustomSampling("file://d:/sampling_scripts/awsome_sampling.py")
#
# try:
# sampling_rate_changed = self.ingester_platform.post(sampling_rate_changed)
# assert(sampling_rate_changed.metadata_id is None, "Sampling rate change failed")
# except:
# assert(True, "Sampling rate change failed")
# User wants some random metadata specific to their project
# FIXME: Not sure what use case this is trying to demonstrate
# random_metadata_schema = DataEntryMetadataSchema()
# random_metadata_schema.addAttr('random_field', Double())
# random_metadata = Metadata(data_entry.data_entry_id, type(data_entry), random_metadata_schema)
# random_metadata.random_field = 1.5
# try:
# random_metadata = self.ingester_platform.post(random_metadata)
# assert(random_metadata.metadata_id is None, "random_metadata failed")
# except:
# assert(True, "random_metadata failed")
# User changes the data source of the dataset
new_data_source = PullDataSource("http://test.com/new_data", "file_handle")
dataset1.data_source = new_data_source
dataset1 = self.ingester_platform.post(dataset1)
self.assertNotEqual(None, dataset1)
# External, 3rd party searches for data
# TODO: external 3rd parties should be able to use the api to get data without authentication
# TODO: I'm not sure exactly how this should work, but the search api could be open access (need spam limitations or something?)
# Project is disabled/finished
work = self.ingester_platform.createUnitOfWork()
work.disable(dataset1.id)
work.disable(dataset2.id)
work.commit()
# Project is obsolete and data should be deleted
work = self.ingester_platform.createUnitOfWork()
work.delete(dataset1.id)
work.delete(dataset2.id)
work.commit()
def test_parent_schemas(self):
"""This test creates a nested schema with attributes provided at 2
different levels. A data entry is saved, and then retrieved, and the
values tested.
"""
loc1 = self.ingester_platform.post(Location(11.0, 11.0, "Test Site", 100))
temp_work = self.ingester_platform.createUnitOfWork()
temperature_schema = DataEntrySchema("Test Temp Schema")
temperature_schema.addAttr(Double("temperature"))
temp_work.post(temperature_schema)
temp_work.commit()
air_temperature_schema = DataEntrySchema("Air Temp Schema")
air_temperature_schema.extends = [temperature_schema.id]
air_temperature_schema = self.ingester_platform.post(air_temperature_schema)
instrument_schema = DataEntrySchema("Instrument Schema")
instrument_schema.extends = [air_temperature_schema.id]
instrument_schema.addAttr(Double("var2"))
instrument_schema = self.ingester_platform.post(instrument_schema)
dataset = Dataset(location=loc1.id, schema=instrument_schema.id)
dataset = self.ingester_platform.post(dataset)
work = self.ingester_platform.createUnitOfWork()
data_entry = DataEntry(dataset.id, datetime.datetime.now())
data_entry["temperature"] = 10
data_entry["var2"] = 11
work.post(data_entry)
work.commit()
data_entry_ret = self.ingester_platform.getDataEntry(dataset.id, data_entry.id)
self.assertEquals(data_entry["temperature"], data_entry_ret["temperature"])
self.assertEquals(data_entry["var2"], data_entry_ret["var2"])
def testMultiDatasetExtraction(self):
"""This test demonstrates use case #402.
There are 2 datasets created, the first holds a datafile, and has a pull ingest occurring, along with
a configured custom script. The second dataset holds observation data, that will be extracted from the
datafile in the first dataset.
"""
temperature_schema = DataEntrySchema()
temperature_schema.addAttr(Double("Temperature"))
temperature_schema = self.ingester_platform.post(temperature_schema)
file_schema = DataEntrySchema()
file_schema.addAttr(FileDataType("file"))
file_schema = self.ingester_platform.post(file_schema)
location = self.ingester_platform.post(Location(10.0, 11.0, "Test Site", 100))
temp_dataset = Dataset(location=None, schema=temperature_schema.id)
file_dataset = Dataset(location=None, schema=file_schema.id, data_source=PullDataSource("http://test.com", "file_handle", processing_script="file://d:/processing_scripts/awsome_processing.py"))
def test_listeners(self):
# Use a list to beat the closure
called = [False]
def loc_listener(obj, var, value):
# The listener will be called when the object is posted
# and when it is committed, so we want to filter out the
# post call
if var == "_id" and value > 0:
called.remove(False)
called.append(True)
loc = Location()
loc.name = "Test Loc1"
loc.set_listener(loc_listener)
work = self.ingester_platform.createUnitOfWork()
work.post(loc)
work.commit()
self.assertTrue(called[0])
def tearDown(self):
self.ingester_platform.reset()
for f in self.cleanup_files:
try:
os.remove(f)
except:
print "failed to remove file: " + f
def setUp(self):
self.auth = CredentialsAuthentication("casey", "password")
self.ingester_platform = IngesterPlatformAPI(
"http://localhost:8080/api", self.auth)
self.cleanup_files = []
class TestIngesterPersistence(unittest.TestCase):
"""This set of tests checks that the CRUD functionality works as expected
"""
def setUp(self):
self.auth = CredentialsAuthentication("casey", "password")
self.ingester_platform = IngesterPlatformAPI(
"http://localhost:8080/api", self.auth)
self.cleanup_files = []
def test_region_persistence(self):
project_region = Region("Test Region",
((1, 1), (2, 2), (2, 1), (1, 1)))
project_region1 = self.ingester_platform.post(project_region)
self.assertNotEqual(project_region1.id, None,
"ID should have been set")
def test_location_persistence(self):
loc = Location(10.0, 11.0, "Test Site", 100, None)
loc1 = self.ingester_platform.post(loc)
self.assertNotEqual(loc1.id, None, "ID should have been set")
self.assertEqual(loc.latitude, loc1.latitude,
"latitude does not match")
self.assertEqual(loc.longitude, loc1.longitude,
"longitude does not match")
self.assertEqual(loc.elevation, loc1.elevation,
"elevation does not match")
self.assertEqual(loc.name, loc1.name, "name does not match")
locs = self.ingester_platform.search(LocationSearchCriteria(), 0,
10).results
self.assertEquals(1, len(locs))
# Now update the location
loc1.name = "The Test Site"
loc1.latitude = -19.0
# Test that the version check is observed
self.assertEquals(1, loc1.version)
loc1.version = 0
self.assertRaises(StaleObjectError, self.ingester_platform.post, loc1)
loc1.version = 1
loc2 = self.ingester_platform.post(loc1)
self.assertEqual(loc1.id, loc2.id, "")
self.assertEqual(loc1.latitude, loc2.latitude,
"latitude does not match")
self.assertEqual(loc1.longitude, loc2.longitude,
"longitude does not match")
self.assertEqual(loc1.elevation, loc2.elevation,
"elevation does not match")
self.assertEqual(loc1.name, loc2.name, "name does not match")
def test_dataset_persistence(self):
loc = Location(10.0, 11.0, "Test Site", 100, None)
loc = self.ingester_platform.post(loc)
self.assertIsNotNone(loc, "Location should not be none")
self.assertIsNotNone(loc.id, "Location should not be none")
file_schema = DataEntrySchema()
file_schema.addAttr(FileDataType("file"))
file_schema = self.ingester_platform.post(file_schema)
script_contents = """Some Script
More"""
dataset = Dataset(location=loc.id,
schema=file_schema.id,
data_source=PullDataSource(
"http://www.bom.gov.au/radar/IDR733.gif",
"file",
processing_script=script_contents),
location_offset=LocationOffset(0, 1, 2))
dataset1 = self.ingester_platform.post(dataset)
self.assertIsNotNone(dataset1, "Dataset should not be none")
self.assertEquals(dataset1.location, dataset.location,
"Location ID does not match")
self.assertEquals(
dataset1.schema, dataset.schema,
"schema does not match %d!=%d" % (dataset1.schema, dataset.schema))
self.assertEquals(dataset1.location_offset.x, 0)
self.assertEquals(dataset1.location_offset.y, 1)
self.assertEquals(dataset1.location_offset.z, 2)
self.assertEquals(script_contents,
dataset1.data_source.processing_script)
datasets = self.ingester_platform.findDatasets()
self.assertEquals(1, len(datasets))
datasets = self.ingester_platform.findDatasets(location=loc.id)
self.assertEquals(1, len(datasets))
data_entry_schemas = self.ingester_platform.search(
DataEntrySchemaSearchCriteria(), 0, 10).results
self.assertEquals(1, len(data_entry_schemas))
datasets = self.ingester_platform.search(DatasetSearchCriteria(), 0,
10).results
self.assertEquals(1, len(datasets))
def test_schema_persistence(self):
file_schema = DataEntrySchema()
file_schema.addAttr(FileDataType("file"))
self.ingester_platform.post(file_schema)
def test_unit_of_work_persistence(self):
unit = self.ingester_platform.createUnitOfWork()
loc = Location(10.0, 11.0, "Test Site", 100, None)
unit.insert(loc)
self.assertIsNotNone(loc.id)
file_schema = DataEntrySchema()
file_schema.name = "File Schema"
file_schema.addAttr(FileDataType("file"))
file_schema_id = unit.insert(file_schema)
self.assertIsNotNone(file_schema_id, "Schema ID should not be null")
dataset = Dataset(location=loc.id,
schema=file_schema.id,
data_source=PullDataSource(
"http://www.bom.gov.au/radar/IDR733.gif",
"file"))
unit.insert(dataset)
# Persist all the objects
unit.commit()
self.assertIsNotNone(loc, "Location should not be none")
self.assertIsNotNone(loc.id, "Location should not be none")
self.assertGreater(loc.id, 0, "Location ID not real")
self.assertEqual(loc.name, "Test Site", "Location name doesn't match")
self.assertIsNotNone(dataset, "dataset should not be none")
self.assertIsNotNone(dataset.id, "dataset should not be none")
self.assertGreater(dataset.id, 0, "dataset ID not real")
def tearDown(self):
self.ingester_platform.reset()
class SchemaTest(unittest.TestCase):
"""
This test defines and checks that the Ingester API works the way the provisioning interface expects.
"""
def setUp(self):
self.auth = CredentialsAuthentication("casey", "password")
self.ingester_platform = IngesterPlatformAPI(
"http://localhost:8080/api", self.auth)
self.schemas = []
def compare_schema_attrs(self, attrs_src, attrs_dst):
# make a copy
attrs_dst = attrs_dst.copy()
for attr in attrs_src:
found = False
for attr_dst in attrs_dst:
if attr in attrs_dst:
del attrs_dst[attr]
found = True
break
self.assertTrue(found, "Attribute not found " + attr)
self.assertEquals(0, len(attrs_dst), "Extra attributes in destination")
def test_data_metadata(self):
work = self.ingester_platform.createUnitOfWork()
schema = DataEntryMetadataSchema("Quality Assurance")
schema.addAttr(Double("value"))
schema.addAttr(String("description"))
work.post(schema)
work.commit()
self.schemas.append(schema)
ingested_schema = self.ingester_platform.getSchema(schema.id)
self.compare_schema_attrs(ingested_schema.attrs, schema.attrs)
self.assertEquals(ingested_schema.name, schema.name)
def test_dataset_metadata(self):
work = self.ingester_platform.createUnitOfWork()
schema = DatasetMetadataSchema("Dataset Calibration")
schema.addAttr(DateTime("date"))
schema.addAttr(String("description"))
work.post(schema)
work.commit()
self.schemas.append(schema)
ingested_schema = self.ingester_platform.getSchema(schema.id)
self.compare_schema_attrs(ingested_schema.attrs, schema.attrs)
self.assertEquals(ingested_schema.name, schema.name)
def test_data(self):
work = self.ingester_platform.createUnitOfWork()
schema = DataEntrySchema("Test123")
schema.addAttr(Double("value"))
schema.addAttr(String("description"))
work.post(schema)
work.commit()
self.schemas.append(schema)
ingested_schema = self.ingester_platform.getSchema(schema.id)
self.compare_schema_attrs(ingested_schema.attrs, schema.attrs)
self.assertEquals(ingested_schema.name, schema.name)
def test_dup_data(self):
work = self.ingester_platform.createUnitOfWork()
schema = DataEntrySchema("Test123")
schema.addAttr(Double("value"))
schema.addAttr(String("description"))
work.post(schema)
work.commit()
self.schemas.append(schema)
def test_delete(self):
work = self.ingester_platform.createUnitOfWork()
for schema in self.schemas:
work.delete(schema)
work.commit()
for schema in self.schemas:
self.assertIsNone(self.ingester_platform.getSchema(schema.id))
def tearDown(self):
self.ingester_platform.close()
class ProvisioningInterfaceTest(unittest.TestCase):
"""
This test defines and checks that the Ingester API works the way the provisioning interface expects.
"""
def setUp(self):
self.auth = CredentialsAuthentication("casey", "password")
self.ingester_platform = IngesterPlatformAPI(
"http://localhost:8080/api", self.auth)
self.cleanup_files = []
def test_api_usage(self):
# User data that is created by filling out the provisioning interface workflow steps.
# General
title = "Test project"
data_manager = "A Person"
project_lead = "Another Person"
# Metadata
project_region = Region("Test Region",
((1, 1), (2, 2), (2, 1), (1, 1)))
# Methods & Datasets
loc1 = Location(11.0, 11.0, "Test Site", 100)
loc2 = Location(11.0, 11.0, "Test Site", 100)
loc3 = Location(12.0, 11.0, "Test Site", 100)
temp_work = self.ingester_platform.createUnitOfWork()
temperature_schema = DataEntrySchema("Test Temp Schema")
temperature_schema.addAttr(Double("temperature"))
temp_work.post(temperature_schema)
temp_work.commit()
air_temperature_schema = DataEntrySchema("Air Temp Schema")
air_temperature_schema.extends = [temperature_schema.id]
air_temperature_schema = self.ingester_platform.post(
air_temperature_schema)
second_level_inheritence_schema = DataEntrySchema("Second Inheritence")
second_level_inheritence_schema.extends = [air_temperature_schema.id]
second_level_inheritence_schema = self.ingester_platform.post(
second_level_inheritence_schema)
# Check the name is set
temperature_schema_1 = self.ingester_platform.getSchema(
temperature_schema.id)
self.assertIsNotNone(temperature_schema.name)
self.assertEquals(temperature_schema.name, temperature_schema_1.name)
file_schema = DataEntrySchema()
file_schema.addAttr(FileDataType("file"))
file_schema = self.ingester_platform.post(file_schema)
dataset1 = Dataset(location=None, schema=temperature_schema.id)
dataset2 = Dataset(
location=None,
schema=file_schema.id,
data_source=PullDataSource(
"http://test.com",
"file_handle",
processing_script=
"file://d:/processing_scripts/awsome_processing.py"))
# dataset3 = Dataset(None, file_schema, PullDataSource("http://test.com", "file_handle"), CustomSampling("file://d:/sampling_scripts/awsome_sampling.py"), "file://d:/processing_scripts/awsome_processing.py")
self.cleanup_files.append(dataset2.data_source.processing_script)
# self.cleanup_files.push(dataset3.sampling.script)
# self.cleanup_files.push(dataset3.processing_script)
# Provisioning admin accepts the submitted project
work = self.ingester_platform.createUnitOfWork()
work.post(project_region) # Save the region
loc1.region = project_region.id # Set the datasets location to use the projects region
work.post(loc1) # Save the location
dataset1.location = loc1.id # Set the datasets location
work.post(dataset1) # Save the dataset
loc2.region = project_region.id
work.post(loc2)
dataset2.location = loc2.id
work.post(dataset2)
work.commit()
# Region, location and dataset id's will be saved to the project within the provisioning system in some way
# User searches for datasets
# TODO: Nigel? - Define searching api
found_dataset_id = dataset1.id # The dataset that has an extended file schema
# User manually enters data
timestamp = datetime.datetime.now()
data_entry_1 = DataEntry(found_dataset_id, timestamp)
data_entry_1['temperature'] = 27.8 # Add the extended schema items
data_entry_1 = self.ingester_platform.post(data_entry_1)
self.assertIsNotNone(data_entry_1.id)
timestamp2 = timestamp + datetime.timedelta(seconds=1)
data_entry_2 = DataEntry(found_dataset_id, timestamp2)
data_entry_2['temperature'] = 27.8 # Add the extended schema items
data_entry_2 = self.ingester_platform.post(data_entry_2)
self.assertEquals(
2,
len(
self.ingester_platform.search(
DataEntrySearchCriteria(found_dataset_id), 0, 10).results))
result = self.ingester_platform.search(
DataEntrySearchCriteria(found_dataset_id), 0, 1)
self.assertEquals(2, result.count)
self.assertEquals(1, len(result.results))
self.assertEquals(
1,
len(
self.ingester_platform.search(
DataEntrySearchCriteria(found_dataset_id), 1, 1).results))
result = self.ingester_platform.search(
DataEntrySearchCriteria(found_dataset_id), 2, 1)
self.assertEquals(0, len(result.results))
self.assertEquals(
0,
len(
self.ingester_platform.search(
DataEntrySearchCriteria(found_dataset_id,
end_time=timestamp -
datetime.timedelta(seconds=60)), 0,
10).results))
self.assertEquals(
0,
len(
self.ingester_platform.search(
DataEntrySearchCriteria(found_dataset_id,
start_time=timestamp +
datetime.timedelta(seconds=60)), 0,
10).results))
self.assertEquals(
2,
len(
self.ingester_platform.search(
DataEntrySearchCriteria(
found_dataset_id,
start_time=timestamp - datetime.timedelta(seconds=60),
end_time=timestamp + datetime.timedelta(seconds=60)),
0, 10).results))
work = self.ingester_platform.createUnitOfWork()
data_entry_3 = DataEntry(dataset2.id, datetime.datetime.now())
data_entry_3['file'] = FileObject(f_handle=open(
os.path.join(os.path.dirname(jcudc24ingesterapi.__file__),
"tests/test_ingest.xml")),
mime_type="text/xml")
work.post(data_entry_3)
work.commit()
self.assertIsNotNone(data_entry_3.id)
f_in = self.ingester_platform.getDataEntryStream(
dataset2.id, data_entry_3.id, "file")
self.assertIsNotNone(f_in)
data = f_in.read()
f_in.close()
self.assertLess(0, len(data), "Expected data in file")
# User enters quality assurance metadata
quality_metadata_schema = DatasetMetadataSchema()
quality_metadata_schema.addAttr(String("unit"))
quality_metadata_schema.addAttr(String("description"))
quality_metadata_schema.addAttr(Double("value"))
quality_metadata_schema = self.ingester_platform.post(
quality_metadata_schema)
entered_metadata = DatasetMetadataEntry(data_entry_1.dataset,
quality_metadata_schema.id)
entered_metadata['unit'] = "%"
entered_metadata['description'] = "Percent error"
entered_metadata['value'] = 0.98
entered_metadata = self.ingester_platform.post(entered_metadata)
# Now find that metadata
results = self.ingester_platform.search(
DatasetMetadataSearchCriteria(data_entry_1.dataset), 0, 10).results
self.assertEqual(1, len(results))
data_entry_md_schema = DataEntryMetadataSchema("test")
data_entry_md_schema.addAttr(String("description"))
data_entry_md_schema.addAttr(Double("value"))
data_entry_md_schema = self.ingester_platform.post(
data_entry_md_schema)
calibration = DataEntryMetadataEntry(metadata_schema_id=int(
data_entry_md_schema.id),
dataset_id=dataset2.id,
object_id=data_entry_3.id)
calibration["description"] = "Test"
calibration["value"] = 1.2
calibration2 = DataEntryMetadataEntry(metadata_schema_id=int(
data_entry_md_schema.id),
dataset_id=dataset2.id,
object_id=data_entry_3.id)
calibration2["description"] = "Test2"
calibration2["value"] = 2.3
calibration2 = self.ingester_platform.post(calibration2)
calibrations = self.ingester_platform.search(
DataEntryMetadataSearchCriteria(int(81), int(3648)),
offset=0,
limit=1000)
self.assertEquals(1, len(calibrations.results))
self.assertEquals(calibrations.results[0].schema_id,
data_entry_md_schema.id)
self.ingester_platform.delete(calibration2)
self.ingester_platform.delete(calibration)
self.ingester_platform.delete(data_entry_md_schema)
# User changes sampling rate
# FIXME: This test is going to be changed to be done by editing the dataset
# sampling_rate_changed = Metadata(dataset1.id, type(dataset1), SampleRateMetadataSchema())
# sampling_rate_changed.change_time = datetime.datetime.now().strftime("%Y-%m-%d %H:%M")
# sampling_rate_changed.sampling = CustomSampling("file://d:/sampling_scripts/awsome_sampling.py")
#
# try:
# sampling_rate_changed = self.ingester_platform.post(sampling_rate_changed)
# assert(sampling_rate_changed.metadata_id is None, "Sampling rate change failed")
# except:
# assert(True, "Sampling rate change failed")
# User wants some random metadata specific to their project
# FIXME: Not sure what use case this is trying to demonstrate
# random_metadata_schema = DataEntryMetadataSchema()
# random_metadata_schema.addAttr('random_field', Double())
# random_metadata = Metadata(data_entry.data_entry_id, type(data_entry), random_metadata_schema)
# random_metadata.random_field = 1.5
# try:
# random_metadata = self.ingester_platform.post(random_metadata)
# assert(random_metadata.metadata_id is None, "random_metadata failed")
# except:
# assert(True, "random_metadata failed")
# User changes the data source of the dataset
new_data_source = PullDataSource("http://test.com/new_data",
"file_handle")
dataset1.data_source = new_data_source
dataset1 = self.ingester_platform.post(dataset1)
self.assertNotEqual(None, dataset1)
# External, 3rd party searches for data
# TODO: external 3rd parties should be able to use the api to get data without authentication
# TODO: I'm not sure exactly how this should work, but the search api could be open access (need spam limitations or something?)
# Project is disabled/finished
work = self.ingester_platform.createUnitOfWork()
work.disable(dataset1.id)
work.disable(dataset2.id)
work.commit()
# Project is obsolete and data should be deleted
work = self.ingester_platform.createUnitOfWork()
work.delete(dataset1.id)
work.delete(dataset2.id)
work.commit()
def test_parent_schemas(self):
"""This test creates a nested schema with attributes provided at 2
different levels. A data entry is saved, and then retrieved, and the
values tested.
"""
loc1 = self.ingester_platform.post(
Location(11.0, 11.0, "Test Site", 100))
temp_work = self.ingester_platform.createUnitOfWork()
temperature_schema = DataEntrySchema("Test Temp Schema")
temperature_schema.addAttr(Double("temperature"))
temp_work.post(temperature_schema)
temp_work.commit()
air_temperature_schema = DataEntrySchema("Air Temp Schema")
air_temperature_schema.extends = [temperature_schema.id]
air_temperature_schema = self.ingester_platform.post(
air_temperature_schema)
instrument_schema = DataEntrySchema("Instrument Schema")
instrument_schema.extends = [air_temperature_schema.id]
instrument_schema.addAttr(Double("var2"))
instrument_schema = self.ingester_platform.post(instrument_schema)
dataset = Dataset(location=loc1.id, schema=instrument_schema.id)
dataset = self.ingester_platform.post(dataset)
work = self.ingester_platform.createUnitOfWork()
data_entry = DataEntry(dataset.id, datetime.datetime.now())
data_entry["temperature"] = 10
data_entry["var2"] = 11
work.post(data_entry)
work.commit()
data_entry_ret = self.ingester_platform.getDataEntry(
dataset.id, data_entry.id)
self.assertEquals(data_entry["temperature"],
data_entry_ret["temperature"])
self.assertEquals(data_entry["var2"], data_entry_ret["var2"])
def testMultiDatasetExtraction(self):
"""This test demonstrates use case #402.
There are 2 datasets created, the first holds a datafile, and has a pull ingest occurring, along with
a configured custom script. The second dataset holds observation data, that will be extracted from the
datafile in the first dataset.
"""
temperature_schema = DataEntrySchema()
temperature_schema.addAttr(Double("Temperature"))
temperature_schema = self.ingester_platform.post(temperature_schema)
file_schema = DataEntrySchema()
file_schema.addAttr(FileDataType("file"))
file_schema = self.ingester_platform.post(file_schema)
location = self.ingester_platform.post(
Location(10.0, 11.0, "Test Site", 100))
temp_dataset = Dataset(location=None, schema=temperature_schema.id)
file_dataset = Dataset(
location=None,
schema=file_schema.id,
data_source=PullDataSource(
"http://test.com",
"file_handle",
processing_script=
"file://d:/processing_scripts/awsome_processing.py"))
def test_listeners(self):
# Use a list to beat the closure
called = [False]
def loc_listener(obj, var, value):
# The listener will be called when the object is posted
# and when it is committed, so we want to filter out the
# post call
if var == "_id" and value > 0:
called.remove(False)
called.append(True)
loc = Location()
loc.name = "Test Loc1"
loc.set_listener(loc_listener)
work = self.ingester_platform.createUnitOfWork()
work.post(loc)
work.commit()
self.assertTrue(called[0])
def tearDown(self):
self.ingester_platform.reset()
for f in self.cleanup_files:
try:
os.remove(f)
except:
print "failed to remove file: " + f
def __init__(self, server):
self.client = IngesterPlatformAPI(server, None)
