def test_select_catalogue_rrup(self):
"""
Tests catalogue selection with Joyner-Boore distance
"""
self.fault = mtkActiveFault(
'001',
'A Fault',
self.simple_fault,
[(5., 0.5), (7., 0.5)],
0.,
None,
msr_sigma=[(-1.5, 0.15), (0., 0.7), (1.5, 0.15)])
cat1 = Catalogue()
cat1.data = {"eventID": ["001", "002", "003", "004"],
"longitude": np.array([30.1, 30.1, 30.5, 31.5]),
"latitude": np.array([30.0, 30.25, 30.4, 30.5]),
"depth": np.array([5.0, 250.0, 10.0, 10.0])}
selector = CatalogueSelector(cat1)
# Select within 50 km of the fault
self.fault.select_catalogue(selector, 50.0,
distance_metric="rupture")
np.testing.assert_array_almost_equal(
self.fault.catalogue.data["longitude"],
np.array([30.1, 30.5]))
np.testing.assert_array_almost_equal(
self.fault.catalogue.data["latitude"],
np.array([30.0, 30.4]))
np.testing.assert_array_almost_equal(
self.fault.catalogue.data["depth"],
np.array([5.0, 10.0]))
def test_select_within_depth_range(self):
'''
Tests the function to select within the depth range
'''
# Setup function
self.catalogue = Catalogue()
self.catalogue.data['depth'] = np.array([5., 15., 25., 35., 45.])
selector0 = CatalogueSelector(self.catalogue)
# Test case 1: No limits specified - all catalogue valid
test_cat_1 = selector0.within_depth_range()
np.testing.assert_array_almost_equal(test_cat_1.data['depth'],
self.catalogue.data['depth'])
# Test case 2: Lower depth limit specfied only
test_cat_1 = selector0.within_depth_range(lower_depth=30.)
np.testing.assert_array_almost_equal(test_cat_1.data['depth'],
np.array([5., 15., 25.]))
# Test case 3: Upper depth limit specified only
test_cat_1 = selector0.within_depth_range(upper_depth=20.)
np.testing.assert_array_almost_equal(test_cat_1.data['depth'],
np.array([25., 35., 45.]))
# Test case 4: Both depth limits specified
test_cat_1 = selector0.within_depth_range(upper_depth=20.,
lower_depth=40.)
np.testing.assert_array_almost_equal(test_cat_1.data['depth'],
np.array([25., 35.]))
class TestMagnitudeTimeDistribution(unittest.TestCase):
"""
Simple class to test the magnitude time density distribution
"""
def setUp(self):
self.catalogue = Catalogue()
x, y = np.meshgrid(np.arange(1915., 2010., 10.),
np.arange(5.5, 9.0, 1.0))
nx, ny = np.shape(x)
self.catalogue.data['magnitude'] = (y.reshape([nx * ny, 1])).flatten()
x = (x.reshape([nx * ny, 1])).flatten()
self.catalogue.data['year'] = x.astype(int)
self.catalogue.data['month'] = np.ones_like(x, dtype=int)
self.catalogue.data['day'] = np.ones_like(x, dtype=int)
self.catalogue.data['hour'] = np.ones_like(x, dtype=int)
self.catalogue.data['minute'] = np.ones_like(x, dtype=int)
self.catalogue.data['second'] = np.ones_like(x, dtype=float)
def test_magnitude_time_distribution_no_uncertainties(self):
# Tests the magnitude-depth distribution without uncertainties
mag_range = np.arange(5., 10., 1.)
time_range = np.arange(1910., 2020., 10.)
# Without normalisation
expected_array = np.ones(
[len(time_range) - 1, len(mag_range) - 1], dtype=float)
np.testing.assert_array_almost_equal(
expected_array,
self.catalogue.get_magnitude_time_distribution(
mag_range, time_range))
# With Normalisation
np.testing.assert_array_almost_equal(
expected_array / np.sum(expected_array),
self.catalogue.get_magnitude_time_distribution(mag_range,
time_range,
normalisation=True))
def select_catalogue(self, valid_id):
'''
Method to post-process the catalogue based on the selection options
:param numpy.ndarray valid_id:
Boolean vector indicating whether each event is selected (True)
or not (False)
:returns:
Catalogue of selected events as instance of
hmtk.seismicity.catalogue.Catalogue class
'''
if not np.any(valid_id):
# No events selected - create clean instance of class
output = Catalogue()
output.processes = self.catalogue.processes
elif np.all(valid_id):
if self.copycat:
output = deepcopy(self.catalogue)
else:
output = self.catalogue
else:
if self.copycat:
output = deepcopy(self.catalogue)
else:
output = self.catalogue
output.purge_catalogue(valid_id)
return output
def select_catalogue(self, valid_id):
'''
Method to post-process the catalogue based on the selection options
:param numpy.ndarray valid_id:
Boolean vector indicating whether each event is selected (True)
or not (False)
:returns:
Catalogue of selected events as instance of
hmtk.seismicity.catalogue.Catalogue class
'''
if not np.any(valid_id):
# No events selected - create clean instance of class
output = Catalogue()
output.processes = self.catalogue.processes
output
elif np.all(valid_id):
if self.copycat:
output = deepcopy(self.catalogue)
else:
output = self.catalogue
else:
if self.copycat:
output = deepcopy(self.catalogue)
else:
output = self.catalogue
output.purge_catalogue(valid_id)
return output
class TestMagnitudeTimeDistribution(unittest.TestCase):
"""
Simple class to test the magnitude time density distribution
"""
def setUp(self):
self.catalogue = Catalogue()
x, y = np.meshgrid(np.arange(1915., 2010., 10.),
np.arange(5.5, 9.0, 1.0))
nx, ny = np.shape(x)
self.catalogue.data['magnitude'] = (y.reshape([nx * ny, 1])).flatten()
x = (x.reshape([nx * ny, 1])).flatten()
self.catalogue.data['year'] = x.astype(int)
self.catalogue.data['month'] = np.ones_like(x, dtype=int)
self.catalogue.data['day'] = np.ones_like(x, dtype=int)
self.catalogue.data['hour'] = np.ones_like(x, dtype=int)
self.catalogue.data['minute'] = np.ones_like(x, dtype=int)
self.catalogue.data['second'] = np.ones_like(x, dtype=float)
def test_magnitude_time_distribution_no_uncertainties(self):
# Tests the magnitude-depth distribution without uncertainties
mag_range = np.arange(5., 10., 1.)
time_range = np.arange(1910., 2020., 10.)
# Without normalisation
expected_array = np.ones([len(time_range) - 1, len(mag_range) - 1],
dtype=float)
np.testing.assert_array_almost_equal(
expected_array,
self.catalogue.get_magnitude_time_distribution(
mag_range, time_range))
# With Normalisation
np.testing.assert_array_almost_equal(
expected_array / np.sum(expected_array),
self.catalogue.get_magnitude_time_distribution(
mag_range, time_range, normalisation=True))
def read_file(self):
"""
"""
filedata = open(self.input_file, 'rU')
catalogue = Catalogue()
# Reading the data file
data = csv.DictReader(filedata)
# Parsing the data content
for irow, row in enumerate(data):
if irow == 0:
valid_key_list = self._header_check(
row.keys(),
catalogue.TOTAL_ATTRIBUTE_LIST)
for key in valid_key_list:
if key in catalogue.FLOAT_ATTRIBUTE_LIST:
catalogue.data[key] = self._float_check(
catalogue.data[key],
row[key])
elif key in catalogue.INT_ATTRIBUTE_LIST:
catalogue.data[key] = self._int_check(
catalogue.data[key],
row[key])
else:
catalogue.data[key].append(row[key])
catalogue.update_end_year()
return catalogue
def test_select_within_magnitude_range(self):
'''
Tests the function to select within the magnitude range
'''
# Setup function
self.catalogue = Catalogue()
self.catalogue.data['magnitude'] = np.array([4., 5., 6., 7., 8.])
selector0 = CatalogueSelector(self.catalogue)
# Test case 1: No limits specified - all catalogue valid
test_cat_1 = selector0.within_magnitude_range()
np.testing.assert_array_almost_equal(test_cat_1.data['magnitude'],
self.catalogue.data['magnitude'])
# Test case 2: Lower depth limit specfied only
test_cat_1 = selector0.within_magnitude_range(lower_mag=5.5)
np.testing.assert_array_almost_equal(test_cat_1.data['magnitude'],
np.array([6., 7., 8.]))
# Test case 3: Upper depth limit specified only
test_cat_1 = selector0.within_magnitude_range(upper_mag=5.5)
np.testing.assert_array_almost_equal(test_cat_1.data['magnitude'],
np.array([4., 5.]))
# Test case 4: Both depth limits specified
test_cat_1 = selector0.within_magnitude_range(upper_mag=7.5,
lower_mag=5.5)
np.testing.assert_array_almost_equal(test_cat_1.data['magnitude'],
np.array([6., 7.]))
def setUp(self):
"""
"""
# Read initial dataset
filename = os.path.join(self.BASE_DATA_PATH,
'completeness_test_cat.csv')
test_data = np.genfromtxt(filename, delimiter=',', skip_header=1)
# Create the catalogue A
self.catalogueA = Catalogue.make_from_dict(
{'year': test_data[:,3], 'magnitude': test_data[:,17]})
# Read initial dataset
filename = os.path.join(self.BASE_DATA_PATH,
'recurrence_test_cat_B.csv')
test_data = np.genfromtxt(filename, delimiter=',', skip_header=1)
# Create the catalogue A
self.catalogueB = Catalogue.make_from_dict(
{'year': test_data[:,3], 'magnitude': test_data[:,17]})
# Read the verification table A
filename = os.path.join(self.BASE_DATA_PATH,
'recurrence_table_test_A.csv')
self.true_tableA = np.genfromtxt(filename, delimiter = ',')
# Read the verification table A
filename = os.path.join(self.BASE_DATA_PATH,
'recurrence_table_test_B.csv')
self.true_tableB = np.genfromtxt(filename, delimiter = ',')
def test_load_from_array(self):
# Tests the creation of a catalogue from an array and a key list
cat = Catalogue()
cat.load_from_array(['year', 'magnitude'], self.data_array)
np.testing.assert_allclose(cat.data['magnitude'], self.data_array[:,
1])
np.testing.assert_allclose(cat.data['year'],
self.data_array[:, 0].astype(int))
def test_load_to_array(self):
"""
Tests the creation of a catalogue from an array and a key list
"""
cat = Catalogue()
cat.load_from_array(['year','magnitude'], self.data_array)
data = cat.load_to_array(['year','magnitude'])
self.assertTrue(np.allclose(data, self.data_array))
def test_hypocentres_as_mesh(self):
# Tests the function to render the hypocentres to a
# hazardlib.geo.mesh.Mesh object.
cat = Catalogue()
cat.data['longitude'] = np.array([2., 3.])
cat.data['latitude'] = np.array([2., 3.])
cat.data['depth'] = np.array([2., 3.])
self.assertTrue(isinstance(cat.hypocentres_as_mesh(), Mesh))
def test_load_from_array(self):
# Tests the creation of a catalogue from an array and a key list
cat = Catalogue()
cat.load_from_array(['year', 'magnitude'], self.data_array)
np.testing.assert_allclose(cat.data['magnitude'],
self.data_array[:, 1])
np.testing.assert_allclose(cat.data['year'],
self.data_array[:, 0].astype(int))
def setUp(self):
"""
"""
self.catalogue = Catalogue()
x, y = np.meshgrid(np.arange(5., 50., 10.), np.arange(5.5, 9.0, 1.))
nx, ny = np.shape(x)
self.catalogue.data['depth'] = (x.reshape([nx * ny, 1])).flatten()
self.catalogue.data['magnitude'] = (y.reshape([nx * ny, 1])).flatten()
def test_load_to_array(self):
"""
Tests the creation of a catalogue from an array and a key list
"""
cat = Catalogue()
cat.load_from_array(['year', 'magnitude'], self.data_array)
data = cat.load_to_array(['year', 'magnitude'])
self.assertTrue(np.allclose(data, self.data_array))
def test_load_from_array(self):
"""
Tests the creation of a catalogue from an array and a key list
"""
cat = Catalogue()
cat.load_from_array(['year','magnitude'], self.data_array)
self.assertTrue(np.allclose(cat.data['magnitude'],self.data_array[:,1]))
self.assertTrue(np.allclose(cat.data['year'],
self.data_array[:,0].astype(int)))
def test_select_within_fault_distance(self):
'''
Tests the selection of events within a distance from the fault
'''
# Set up catalouge
self.catalogue = Catalogue()
self.catalogue.data['longitude'] = np.arange(0., 5.5, 0.5)
self.catalogue.data['latitude'] = np.arange(0., 5.5, 0.5)
self.catalogue.data['depth'] = np.zeros(11, dtype=float)
self.catalogue.data['eventID'] = np.arange(0, 11, 1)
self.fault_source = mtkSimpleFaultSource('101', 'A simple fault')
trace_as_line = line.Line(
[point.Point(2.0, 3.0),
point.Point(3.0, 2.0)])
self.fault_source.create_geometry(trace_as_line, 30., 0., 30.)
selector0 = CatalogueSelector(self.catalogue)
# Test 1 - simple case Joyner-Boore distance
self.fault_source.select_catalogue(selector0, 40.)
np.testing.assert_array_almost_equal(
np.array([2., 2.5]), self.fault_source.catalogue.data['longitude'])
np.testing.assert_array_almost_equal(
np.array([2., 2.5]), self.fault_source.catalogue.data['latitude'])
# Test 2 - simple case Rupture distance
self.fault_source.catalogue = None
self.fault_source.select_catalogue(selector0, 40., 'rupture')
np.testing.assert_array_almost_equal(
np.array([2.5]), self.fault_source.catalogue.data['longitude'])
np.testing.assert_array_almost_equal(
np.array([2.5]), self.fault_source.catalogue.data['latitude'])
# Test 3 - for vertical fault ensure that Joyner-Boore distance
# behaviour is the same as for rupture distance
fault1 = mtkSimpleFaultSource('102', 'A vertical fault')
fault1.create_geometry(trace_as_line, 90., 0., 30.)
self.fault_source.create_geometry(trace_as_line, 90., 0., 30.)
# Joyner-Boore
self.fault_source.select_catalogue(selector0, 40.)
# Rupture
fault1.select_catalogue(selector0, 40., 'rupture')
np.testing.assert_array_almost_equal(
self.fault_source.catalogue.data['longitude'],
fault1.catalogue.data['longitude'])
np.testing.assert_array_almost_equal(
self.fault_source.catalogue.data['latitude'],
fault1.catalogue.data['latitude'])
# The usual test to ensure error is raised when no events in catalogue
self.catalogue = Catalogue()
selector0 = CatalogueSelector(self.catalogue)
with self.assertRaises(ValueError) as ver:
self.fault_source.select_catalogue(selector0, 40.0)
self.assertEqual(ver.exception.message,
'No events found in catalogue!')
def test_load_from_array(self):
"""
Tests the creation of a catalogue from an array and a key list
"""
cat = Catalogue()
cat.load_from_array(['year', 'magnitude'], self.data_array)
self.assertTrue(
np.allclose(cat.data['magnitude'], self.data_array[:, 1]))
self.assertTrue(
np.allclose(cat.data['year'], self.data_array[:, 0].astype(int)))
def test_catalogue_mt_filter(self):
"""
Tests the catalogue magnitude-time filter
"""
cat = Catalogue()
cat.load_from_array(['year','magnitude'], self.data_array)
cat.catalogue_mt_filter(self.mt_table)
mag = np.array([7.0, 5.5, 5.01, 6.99])
yea = np.array([1920, 1970, 1960, 1960])
self.assertTrue(np.allclose(cat.data['magnitude'],mag))
self.assertTrue(np.allclose(cat.data['year'],yea))
def test_select_catalogue(self):
'''
Tests the select_catalogue function - essentially a wrapper to the
two selection functions
'''
self.point_source = mtkPointSource('101', 'A Point Source')
simple_point = Point(4.5, 4.5)
self.point_source.create_geometry(simple_point, 0., 30.)
# Bad case - no events in catalogue
self.catalogue = Catalogue()
selector0 = CatalogueSelector(self.catalogue)
with self.assertRaises(ValueError) as ver:
self.point_source.select_catalogue(selector0, 100.)
self.assertEqual(ver.exception.message,
'No events found in catalogue!')
# Create a catalogue
self.catalogue = Catalogue()
self.catalogue.data['eventID'] = np.arange(0, 7, 1)
self.catalogue.data['longitude'] = np.arange(4.0, 7.5, 0.5)
self.catalogue.data['latitude'] = np.arange(4.0, 7.5, 0.5)
self.catalogue.data['depth'] = np.ones(7, dtype=float)
selector0 = CatalogueSelector(self.catalogue)
# To ensure that square function is called - compare against direct instance
# First implementation - compare select within distance
self.point_source.select_catalogue_within_distance(selector0,
100.,
'epicentral')
expected_catalogue = deepcopy(self.point_source.catalogue)
self.point_source.catalogue = None # Reset catalogue
self.point_source.select_catalogue(selector0, 100., 'circle')
np.testing.assert_array_equal(
self.point_source.catalogue.data['eventID'],
expected_catalogue.data['eventID'])
# Second implementation - compare select within cell
expected_catalogue = None
self.point_source.select_catalogue_within_cell(selector0, 150.)
expected_catalogue = deepcopy(self.point_source.catalogue)
self.point_source.catalogue = None # Reset catalogue
self.point_source.select_catalogue(selector0, 150., 'square')
np.testing.assert_array_equal(
self.point_source.catalogue.data['eventID'],
expected_catalogue.data['eventID'])
# Finally ensure error is raised when input is neither 'circle' nor 'square'
with self.assertRaises(ValueError) as ver:
self.point_source.select_catalogue(selector0, 100., 'bad input')
self.assertEqual(ver.exception.message,
'Unrecognised selection type for point source!')
def test_get_bounding_box(self):
"""
Tests the method to return the bounding box of a catalogue
"""
cat1 = Catalogue()
cat1.data["longitude"] = np.array([10.0, 20.0])
cat1.data["latitude"] = np.array([40.0, 50.0])
bbox = cat1.get_bounding_box()
self.assertAlmostEqual(bbox[0], 10.0)
self.assertAlmostEqual(bbox[1], 20.0)
self.assertAlmostEqual(bbox[2], 40.0)
self.assertAlmostEqual(bbox[3], 50.0)
def test_get_bounding_box(self):
"""
Tests the method to return the bounding box of a catalogue
"""
cat1 = Catalogue()
cat1.data["longitude"] = np.array([10.0, 20.0])
cat1.data["latitude"] = np.array([40.0, 50.0])
bbox = cat1.get_bounding_box()
self.assertAlmostEqual(bbox[0], 10.0)
self.assertAlmostEqual(bbox[1], 20.0)
self.assertAlmostEqual(bbox[2], 40.0)
self.assertAlmostEqual(bbox[3], 50.0)
def setUp(self):
self.catalogue = Catalogue()
x, y = np.meshgrid(np.arange(1915., 2010., 10.),
np.arange(5.5, 9.0, 1.0))
nx, ny = np.shape(x)
self.catalogue.data['magnitude'] = (y.reshape([nx * ny, 1])).flatten()
x = (x.reshape([nx * ny, 1])).flatten()
self.catalogue.data['year'] = x.astype(int)
self.catalogue.data['month'] = np.ones_like(x, dtype=int)
self.catalogue.data['day'] = np.ones_like(x, dtype=int)
self.catalogue.data['hour'] = np.ones_like(x, dtype=int)
self.catalogue.data['minute'] = np.ones_like(x, dtype=int)
self.catalogue.data['second'] = np.ones_like(x, dtype=float)
def test_hypocentres_to_cartesian(self):
# Tests the function to render the hypocentres to a cartesian array.
# The invoked function nhlib.geo.utils.spherical_to_cartesian is
# tested as part of the nhlib suite. The test here is included for
# coverage
cat = Catalogue()
cat.data['longitude'] = np.array([2., 3.])
cat.data['latitude'] = np.array([2., 3.])
cat.data['depth'] = np.array([2., 3.])
expected_data = spherical_to_cartesian(cat.data['longitude'],
cat.data['latitude'],
cat.data['depth'])
model_output = cat.hypocentres_to_cartesian()
np.testing.assert_array_almost_equal(expected_data, model_output)
def setUp(self):
cat1 = Catalogue()
cat1.end_year = 2000
cat1.start_year = 1900
cat1.data['eventID'] = [1.0, 2.0, 3.0]
cat1.data['magnitude'] = np.array([1.0, 2.0, 3.0])
cat2 = Catalogue()
cat2.end_year = 1990
cat2.start_year = 1910
cat2.data['eventID'] = [1.0, 2.0, 3.0]
cat2.data['magnitude'] = np.array([1.0, 2.0, 3.0])
self.cat1 = cat1
self.cat2 = cat2
def setUp(self):
"""
Sets up the test catalogue to be used for the Weichert algorithm
"""
cat_file = os.path.join(BASE_DATA_PATH, "synthetic_test_cat1.csv")
raw_data = np.genfromtxt(cat_file, delimiter=",")
neq = raw_data.shape[0]
self.catalogue = Catalogue.make_from_dict({
"eventID":
raw_data[:, 0].astype(int),
"year":
raw_data[:, 1].astype(int),
"dtime":
raw_data[:, 2],
"longitude":
raw_data[:, 3],
"latitude":
raw_data[:, 4],
"magnitude":
raw_data[:, 5],
"depth":
raw_data[:, 6]
})
self.config = {"reference_magnitude": 3.0}
self.completeness = np.array([[1990., 3.0], [1975., 4.0], [1960., 5.0],
[1930., 6.0], [1910., 7.0]])
def test_input_checks_sets_magnitude_interval(self):
fake_completeness_table = 0.0
catalogue = Catalogue.make_from_dict({'year': [1900]})
config = {'magnitude_interval' : 0.1}
cmag, ctime, ref_mag, dmag, _ = rec_utils.input_checks(catalogue,
config, fake_completeness_table)
self.assertEqual(0.1, dmag)
def test_analysis_Frankel_comparison(self):
'''
To test the run_analysis function we compare test results with those
from Frankel's fortran implementation, under the same conditions
'''
self.grid_limits = [-128., -113.0, 0.2, 30., 43.0, 0.2, 0., 100., 100.]
comp_table = np.array([[1933., 4.0], [1900., 5.0], [1850., 6.0],
[1850., 7.0]])
config = {'Length_Limit': 3., 'BandWidth': 50., 'increment': 0.1}
self.model = SmoothedSeismicity(self.grid_limits, bvalue=0.8)
self.catalogue = Catalogue()
frankel_catalogue = np.genfromtxt(
os.path.join(BASE_PATH, FRANKEL_TEST_CATALOGUE))
self.catalogue.data['magnitude'] = frankel_catalogue[:, 0]
self.catalogue.data['longitude'] = frankel_catalogue[:, 1]
self.catalogue.data['latitude'] = frankel_catalogue[:, 2]
self.catalogue.data['depth'] = frankel_catalogue[:, 3]
self.catalogue.data['year'] = frankel_catalogue[:, 4]
self.catalogue.end_year = 2006
frankel_results = np.genfromtxt(
os.path.join(BASE_PATH, FRANKEL_OUTPUT_FILE))
# Run analysis
output_data = self.model.run_analysis(
self.catalogue,
config,
completeness_table=comp_table,
smoothing_kernel=IsotropicGaussian())
self.assertTrue(
fabs(np.sum(output_data[:, -1]) -
np.sum(output_data[:, -2])) < 1.0)
self.assertTrue(fabs(np.sum(output_data[:, -1]) - 390.) < 1.0)
def test_input_checks_sets_magnitude_interval(self):
fake_completeness_table = 0.0
catalogue = Catalogue.make_from_dict({'year': [1900]})
config = {'magnitude_interval': 0.1}
cmag, ctime, ref_mag, dmag, _ = rec_utils.input_checks(
catalogue, config, fake_completeness_table)
self.assertEqual(0.1, dmag)
def test_select_within_depth_range(self):
'''
Tests the function to select within the depth range
'''
# Setup function
self.catalogue = Catalogue()
self.catalogue.data['depth'] = np.array([5., 15., 25., 35., 45.])
selector0 = CatalogueSelector(self.catalogue)
# Test case 1: No limits specified - all catalogue valid
test_cat_1 = selector0.within_depth_range()
np.testing.assert_array_almost_equal(test_cat_1.data['depth'],
self.catalogue.data['depth'])
# Test case 2: Lower depth limit specfied only
test_cat_1 = selector0.within_depth_range(lower_depth=30.)
np.testing.assert_array_almost_equal(test_cat_1.data['depth'],
np.array([5., 15., 25.]))
# Test case 3: Upper depth limit specified only
test_cat_1 = selector0.within_depth_range(upper_depth=20.)
np.testing.assert_array_almost_equal(test_cat_1.data['depth'],
np.array([25., 35., 45.]))
# Test case 4: Both depth limits specified
test_cat_1 = selector0.within_depth_range(upper_depth=20.,
lower_depth=40.)
np.testing.assert_array_almost_equal(test_cat_1.data['depth'],
np.array([25., 35.]))
def setUp(self):
"""
This generates a minimum data-set to be used for the regression.
"""
# Test A: Generates a data set assuming b=1 and N(m=4.0)=10.0 events
self.dmag = 0.1
mext = np.arange(4.0, 7.01, 0.1)
self.mval = mext[0:-1] + self.dmag / 2.0
self.bval = 1.0
self.numobs = np.flipud(
np.diff(np.flipud(10.0 ** (-self.bval * mext + 8.0))))
# Test B: Generate a completely artificial catalogue using the
# Gutenberg-Richter distribution defined above
numobs = np.around(self.numobs)
size = int(np.sum(self.numobs))
magnitude = np.zeros(size)
lidx = 0
for mag, nobs in zip(self.mval, numobs):
uidx = int(lidx+nobs)
magnitude[lidx:uidx] = mag + 0.01
lidx = uidx
year = np.ones(size) * 1999
self.catalogue = Catalogue.make_from_dict(
{'magnitude': magnitude, 'year': year})
# Create the seismicity occurrence calculator
self.aki_ml = AkiMaxLikelihood()
def test_input_checks_use_reference_magnitude(self):
fake_completeness_table = 0.0
catalogue = Catalogue.make_from_dict({'year': [1900]})
config = {'reference_magnitude': 3.0}
cmag, ctime, ref_mag, dmag, _ = rec_utils.input_checks(
catalogue, config, fake_completeness_table)
self.assertEqual(3.0, ref_mag)
def setUp(self):
"""
This generates a minimum data-set to be used for the regression.
"""
# Test A: Generates a data set assuming b=1 and N(m=4.0)=10.0 events
self.dmag = 0.1
mext = np.arange(4.0, 7.01, 0.1)
self.mval = mext[0:-1] + self.dmag / 2.0
self.bval = 1.0
self.numobs = np.flipud(
np.diff(np.flipud(10.0 ** (-self.bval * mext + 8.0))))
# Test B: Generate a completely artificial catalogue using the
# Gutenberg-Richter distribution defined above
numobs = np.around(self.numobs)
size = int(np.sum(self.numobs))
magnitude = np.zeros(size)
lidx = 0
for mag, nobs in zip(self.mval, numobs):
uidx = int(lidx+nobs)
magnitude[lidx:uidx] = mag + 0.01
lidx = uidx
year = np.ones(size) * 1999
self.catalogue = Catalogue.make_from_dict(
{'magnitude': magnitude, 'year': year})
# Create the seismicity occurrence calculator
self.aki_ml = AkiMaxLikelihood()
def test_select_events_within_cell(self):
'''
Tests the selection of events within a cell centred on the point
'''
self.point_source = mtkPointSource('101', 'A Point Source')
simple_point = Point(4.5, 4.5)
self.point_source.create_geometry(simple_point, 0., 30.)
self.catalogue = Catalogue()
self.catalogue.data['eventID'] = np.arange(0, 7, 1)
self.catalogue.data['longitude'] = np.arange(4.0, 7.5, 0.5)
self.catalogue.data['latitude'] = np.arange(4.0, 7.5, 0.5)
self.catalogue.data['depth'] = np.ones(7, dtype=float)
selector0 = CatalogueSelector(self.catalogue)
# Simple case - 200 km by 200 km cell centred on point
self.point_source.select_catalogue_within_cell(selector0, 100.)
np.testing.assert_array_almost_equal(
np.array([4., 4.5, 5.]),
self.point_source.catalogue.data['longitude'])
np.testing.assert_array_almost_equal(
np.array([4., 4.5, 5.]),
self.point_source.catalogue.data['latitude'])
np.testing.assert_array_almost_equal(
np.array([1., 1., 1.]),
self.point_source.catalogue.data['depth'])
def test_kijko_smit_set_reference_magnitude(self):
completeness_table = np.array([[1900, 1.0]])
catalogue = Catalogue.make_from_dict(
{'magnitude': np.array([5.0, 6.0]),
'year': np.array([2000, 2000])})
config = {'reference_magnitude': 0.0}
self.ks_ml.calculate(catalogue, config, completeness_table)
def test_select_within_distance(self):
'''
Tests the selection of earthquakes within distance of fault
'''
# Create fault
self.fault_source = mtkComplexFaultSource('101', 'A complex fault')
# Test case when input as list of nhlib.geo.line.Line
self.fault_source.create_geometry(self.trace_line, mesh_spacing=2.0)
self.assertIsInstance(self.fault_source.geometry, ComplexFaultSurface)
# Create simple catalogue
self.catalogue.data['longitude'] = np.arange(0., 4.1, 0.1)
self.catalogue.data['latitude'] = np.arange(0., 4.1, 0.1)
self.catalogue.data['depth'] = np.ones(41, dtype=float)
self.catalogue.data['eventID'] = np.arange(0, 41, 1)
selector0 = CatalogueSelector(self.catalogue)
# Test when considering Joyner-Boore distance
self.fault_source.select_catalogue(selector0, 50.)
np.testing.assert_array_equal(
self.fault_source.catalogue.data['eventID'], np.arange(2, 14, 1))
# Test when considering rupture distance
self.fault_source.select_catalogue(selector0, 50., 'rupture')
np.testing.assert_array_equal(
self.fault_source.catalogue.data['eventID'], np.arange(2, 12, 1))
# The usual test to ensure error is raised when no events in catalogue
self.catalogue = Catalogue()
selector0 = CatalogueSelector(self.catalogue)
with self.assertRaises(ValueError) as ver:
self.fault_source.select_catalogue(selector0, 40.0)
self.assertEqual(ver.exception.message,
'No events found in catalogue!')
def test_input_checks_use_reference_magnitude(self):
fake_completeness_table = 0.0
catalogue = Catalogue.make_from_dict({'year': [1900]})
config = {'reference_magnitude' : 3.0}
cmag, ctime, ref_mag, dmag, _ = rec_utils.input_checks(catalogue,
config, fake_completeness_table)
self.assertEqual(3.0, ref_mag)
def test_select_within_magnitude_range(self):
'''
Tests the function to select within the magnitude range
'''
# Setup function
self.catalogue = Catalogue()
self.catalogue.data['magnitude'] = np.array([4., 5., 6., 7., 8.])
selector0 = CatalogueSelector(self.catalogue)
# Test case 1: No limits specified - all catalogue valid
test_cat_1 = selector0.within_magnitude_range()
np.testing.assert_array_almost_equal(test_cat_1.data['magnitude'],
self.catalogue.data['magnitude'])
# Test case 2: Lower depth limit specfied only
test_cat_1 = selector0.within_magnitude_range(lower_mag=5.5)
np.testing.assert_array_almost_equal(test_cat_1.data['magnitude'],
np.array([6., 7., 8.]))
# Test case 3: Upper depth limit specified only
test_cat_1 = selector0.within_magnitude_range(upper_mag=5.5)
np.testing.assert_array_almost_equal(test_cat_1.data['magnitude'],
np.array([4., 5.]))
# Test case 4: Both depth limits specified
test_cat_1 = selector0.within_magnitude_range(upper_mag=7.5,
lower_mag=5.5)
np.testing.assert_array_almost_equal(test_cat_1.data['magnitude'],
np.array([6., 7.]))
def test_catalogue_writer_only_mag_table_purging(self):
'''
Tests the writer only purging according to the magnitude table
'''
# Write to file
writer = CsvCatalogueWriter(self.output_filename)
writer.write_file(self.catalogue, magnitude_table=self.magnitude_table)
parser = CsvCatalogueParser(self.output_filename)
cat2 = parser.read_file()
expected_catalogue = Catalogue()
expected_catalogue.data['eventID'] = np.array([1, 3, 5])
expected_catalogue.data['magnitude'] = np.array([5.6, 4.8, 5.0])
expected_catalogue.data['year'] = np.array([1960, 1970, 1990])
expected_catalogue.data['ErrorStrike'] =np.array([np.nan, np.nan,
np.nan])
self.check_catalogues_are_equal(expected_catalogue, cat2)
def setUp(self):
"""
"""
self.catalogue = Catalogue()
x, y = np.meshgrid(np.arange(5., 50., 10.), np.arange(5.5, 9.0, 1.))
nx, ny = np.shape(x)
self.catalogue.data['depth'] = (x.reshape([nx * ny, 1])).flatten()
self.catalogue.data['magnitude'] = (y.reshape([nx * ny, 1])).flatten()
def test_input_checks_simple_input(self):
completeness_table = [[1900, 2.0]]
catalogue = Catalogue.make_from_dict({
'magnitude': [5.0, 6.0],
'year': [2000, 2000]
})
config = {}
rec_utils.input_checks(catalogue, config, completeness_table)
def test_kijko_smit_set_reference_magnitude(self):
completeness_table = np.array([[1900, 1.0]])
catalogue = Catalogue.make_from_dict({
'magnitude': np.array([5.0, 6.0]),
'year': np.array([2000, 2000])
})
config = {'reference_magnitude': 0.0}
self.ks_ml.calculate(catalogue, config, completeness_table)
def test_catalogue_writer_only_flag_purging(self):
'''
Tests the writer only purging according to the flag
'''
# Write to file
writer = CsvCatalogueWriter(self.output_filename)
writer.write_file(self.catalogue, flag_vector=self.flag)
parser = CsvCatalogueParser(self.output_filename)
cat2 = parser.read_file()
expected_catalogue = Catalogue()
expected_catalogue.data['eventID'] = np.array([1, 2, 3, 4])
expected_catalogue.data['magnitude'] = np.array([5.6, 5.4, 4.8, 4.3])
expected_catalogue.data['year'] = np.array([1960, 1965, 1970, 1980])
expected_catalogue.data['ErrorStrike'] = np.array([np.nan, np.nan,
np.nan, np.nan])
self.check_catalogues_are_equal(expected_catalogue, cat2)
def test_catalogue_writer_both_purging(self):
'''
Tests the writer only purging according to the magnitude table and
the flag vector
'''
# Write to file
writer = CsvCatalogueWriter(self.output_filename)
writer.write_file(self.catalogue,
flag_vector=self.flag,
magnitude_table=self.magnitude_table)
parser = CsvCatalogueParser(self.output_filename)
cat2 = parser.read_file()
expected_catalogue = Catalogue()
expected_catalogue.data['eventID'] = ['1', '3']
expected_catalogue.data['magnitude'] = np.array([5.6, 4.8])
expected_catalogue.data['year'] = np.array([1960, 1970])
expected_catalogue.data['ErrorStrike'] = np.array([np.nan, np.nan])
self.check_catalogues_are_equal(expected_catalogue, cat2)
def test_update_start_end_year(self):
# Tests the correct usage of the update start year
cat1 = Catalogue()
cat1.data['year'] = np.array([1900, 1950, 2000])
# Update start year
cat1.update_start_year()
self.assertEqual(cat1.start_year, 1900)
# Update end-year
cat1.update_end_year()
self.assertEqual(cat1.end_year, 2000)
def test_catalogue_mt_filter(self):
# Tests the catalogue magnitude-time filter
cat = Catalogue()
cat.load_from_array(['year', 'magnitude'], self.data_array)
cat.data['eventID'] = np.arange(0, 7)
cat.catalogue_mt_filter(self.mt_table)
mag = np.array([7.0, 5.5, 5.01, 6.99])
yea = np.array([1920, 1970, 1960, 1960])
np.testing.assert_allclose(cat.data['magnitude'], mag)
np.testing.assert_allclose(cat.data['year'], yea)
def test_select_events_in_source(self):
'''
Basic test of method to select events from catalogue in polygon
'''
self.area_source = mtkAreaSource('101', 'A Source')
simple_polygon = polygon.Polygon([
point.Point(2.0, 3.0),
point.Point(3.0, 3.0),
point.Point(3.0, 2.0),
point.Point(2.0, 2.0)
])
self.catalogue.data['eventID'] = np.arange(0, 7, 1)
self.catalogue.data['longitude'] = np.arange(1.0, 4.5, 0.5)
self.catalogue.data['latitude'] = np.arange(1.0, 4.5, 0.5)
self.catalogue.data['depth'] = np.ones(7, dtype=float)
# Simple Case - No buffer
selector0 = CatalogueSelector(self.catalogue)
self.area_source.create_geometry(simple_polygon, 0., 30.)
self.area_source.select_catalogue(selector0, 0.)
np.testing.assert_array_almost_equal(
np.array([2., 2.5, 3.]),
self.area_source.catalogue.data['longitude'])
np.testing.assert_array_almost_equal(
np.array([2., 2.5, 3.]),
self.area_source.catalogue.data['latitude'])
np.testing.assert_array_almost_equal(
np.array([1., 1., 1.]), self.area_source.catalogue.data['depth'])
# Simple case - dilated by 200 km (selects all)
self.area_source.select_catalogue(selector0, 200.)
np.testing.assert_array_almost_equal(
np.array([1., 1.5, 2., 2.5, 3., 3.5, 4.0]),
self.area_source.catalogue.data['longitude'])
np.testing.assert_array_almost_equal(
np.array([1., 1.5, 2., 2.5, 3., 3.5, 4.0]),
self.area_source.catalogue.data['latitude'])
np.testing.assert_array_almost_equal(
np.ones(7, dtype=float), self.area_source.catalogue.data['depth'])
# Bad case - no events in catalogue
self.catalogue = Catalogue()
selector0 = CatalogueSelector(self.catalogue)
with self.assertRaises(ValueError) as ver:
self.area_source.select_catalogue(selector0, 0.0)
self.assertEqual(ver.exception.message,
'No events found in catalogue!')
def test_get_decimal_time(self):
# Tests the decimal time function. The function itself is tested in
# tests.seismicity.utils so only minimal testing is undertaken here to
# ensure coverage
time_dict = {'year': np.array([1990, 2000]),
'month': np.array([3, 9]),
'day': np.ones(2, dtype=int),
'hour': np.ones(2, dtype=int),
'minute': np.ones(2, dtype=int),
'second': np.ones(2, dtype=float)}
expected_dec_time = decimal_time(time_dict['year'],
time_dict['month'],
time_dict['day'],
time_dict['hour'],
time_dict['minute'],
time_dict['second'])
cat = Catalogue()
for key in ['year', 'month', 'day', 'hour', 'minute', 'second']:
cat.data[key] = np.copy(time_dict[key])
np.testing.assert_array_almost_equal(expected_dec_time,
cat.get_decimal_time())
def read_file(self):
"""
"""
filedata = open(self.input_file, 'rU')
catalogue = Catalogue()
# Reading the data file
data = csv.DictReader(filedata)
# Parsing the data content
for irow, row in enumerate(data):
if irow == 0:
valid_key_list = self._header_check(
row.keys(), catalogue.TOTAL_ATTRIBUTE_LIST)
for key in valid_key_list:
if key in catalogue.FLOAT_ATTRIBUTE_LIST:
catalogue.data[key] = self._float_check(
catalogue.data[key], row[key])
elif key in catalogue.INT_ATTRIBUTE_LIST:
catalogue.data[key] = self._int_check(
catalogue.data[key], row[key])
else:
catalogue.data[key].append(row[key])
return catalogue
def setUp(self):
self.catalogue = Catalogue()
x, y = np.meshgrid(np.arange(1915., 2010., 10.),
np.arange(5.5, 9.0, 1.0))
nx, ny = np.shape(x)
self.catalogue.data['magnitude'] = (y.reshape([nx * ny, 1])).flatten()
x = (x.reshape([nx * ny, 1])).flatten()
self.catalogue.data['year'] = x.astype(int)
self.catalogue.data['month'] = np.ones_like(x, dtype=int)
self.catalogue.data['day'] = np.ones_like(x, dtype=int)
self.catalogue.data['hour'] = np.ones_like(x, dtype=int)
self.catalogue.data['minute'] = np.ones_like(x, dtype=int)
self.catalogue.data['second'] = np.ones_like(x, dtype=float)
def test_get_decimal_time(self):
# Tests the decimal time function. The function itself is tested in
# tests.seismicity.utils so only minimal testing is undertaken here to
# ensure coverage
time_dict = {
'year': np.array([1990, 2000]),
'month': np.array([3, 9]),
'day': np.ones(2, dtype=int),
'hour': np.ones(2, dtype=int),
'minute': np.ones(2, dtype=int),
'second': np.ones(2, dtype=float)
}
expected_dec_time = decimal_time(time_dict['year'], time_dict['month'],
time_dict['day'], time_dict['hour'],
time_dict['minute'],
time_dict['second'])
cat = Catalogue()
for key in ['year', 'month', 'day', 'hour', 'minute', 'second']:
cat.data[key] = np.copy(time_dict[key])
np.testing.assert_array_almost_equal(expected_dec_time,
cat.get_decimal_time())
def setUp(self):
warnings.simplefilter("ignore")
self.catalogue = Catalogue()
self.fault_source = None
self.trace_line = [line.Line([point.Point(1.0, 0.0, 1.0),
point.Point(0.0, 1.0, 0.9)])]
self.trace_line.append(line.Line([point.Point(1.2, 0.0, 40.),
point.Point(1.0, 1.0, 45.),
point.Point(0.0, 1.3, 42.)]))
self.trace_array = [np.array([[1.0, 0.0, 1.0], [0.0, 1.0, 0.9]])]
self.trace_array.append(np.array([[1.2, 0.0, 40.],
[1.0, 1.0, 45.],
[0.0, 1.3, 42.]]))
def build_catalogue_from_file(filename):
"""
Creates a "minimal" catalogue from a raw csv file
"""
raw_data = np.genfromtxt(filename, delimiter=",")
neq = raw_data.shape[0]
return Catalogue.make_from_dict({"eventID": raw_data[:, 0].astype(int),
"year": raw_data[:, 1].astype(int),
"dtime": raw_data[:, 2],
"longitude": raw_data[:, 3],
"latitude": raw_data[:, 4],
"magnitude": raw_data[:, 5],
"depth": raw_data[:, 6]})
def test_hypocentres_as_mesh(self):
# Tests the function to render the hypocentres to a
# hazardlib.geo.mesh.Mesh object.
cat = Catalogue()
cat.data['longitude'] = np.array([2., 3.])
cat.data['latitude'] = np.array([2., 3.])
cat.data['depth'] = np.array([2., 3.])
self.assertTrue(isinstance(cat.hypocentres_as_mesh(), Mesh))
def test_generate_synthetic_catalogues(self):
'''
Tests the hmtk.seismicity.occurence.utils function
generate_synthetic_magnitudes
'''
bvals = []
# Generate set of synthetic catalogues
for i in range(0, 100):
cat1 = rec_utils.generate_synthetic_magnitudes(4.5, 1.0, 4.0, 8.0,
1000)
bvals.append(self.occur.calculate(
Catalogue.make_from_dict(cat1))[0])
bvals = np.array(bvals)
self.assertAlmostEqual(np.mean(bvals), 1.0, 1)
def test_generate_magnitudes(self):
'''
Tests the hmtk.seismicity.occurence.utils function
generate_trunc_gr_magnitudes
'''
bvals = []
# Generate set of synthetic catalogues
for _ in range(0, 100):
mags = rec_utils.generate_trunc_gr_magnitudes(1.0, 4.0, 8.0, 1000)
cat = Catalogue.make_from_dict(
{'magnitude': mags,
'year': np.zeros(len(mags), dtype=int)})
bvals.append(self.occur.calculate(cat)[0])
bvals = np.array(bvals)
self.assertAlmostEqual(np.mean(bvals), 1.0, 1)
def test_update_start_end_year(self):
# Tests the correct usage of the update start year
cat1 = Catalogue()
cat1.data['year'] = np.array([1900, 1950, 2000])
# Update start year
cat1.update_start_year()
self.assertEqual(cat1.start_year, 1900)
# Update end-year
cat1.update_end_year()
self.assertEqual(cat1.end_year, 2000)
def test_catalogue_mt_filter(self):
# Tests the catalogue magnitude-time filter
cat = Catalogue()
cat.load_from_array(['year', 'magnitude'], self.data_array)
cat.data['eventID'] = np.arange(0, 7)
cat.catalogue_mt_filter(self.mt_table)
mag = np.array([7.0, 5.5, 5.01, 6.99])
yea = np.array([1920, 1970, 1960, 1960])
np.testing.assert_allclose(cat.data['magnitude'], mag)
np.testing.assert_allclose(cat.data['year'], yea)
