diff --git a/.coveragerc b/.coveragerc
index aa0939e4143cdd9a133e11f9e1633ff15cae7fc3..7caf518655da0c16189ce7c18f007a4d381ca61b 100644
--- a/.coveragerc
+++ b/.coveragerc
@@ -1,6 +1,6 @@
[run]
omit =
- test/example_test.py
- test/gw_example_test.py
- test/noise_realisation_test.py
- test/other_test.py
+ test/core/example_test.py
+ test/gw/example_test.py
+ test/gw/noise_realisation_test.py
+ test/gw/other_test.py
diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index e9a72a2c56d4d62655f4a4c0d1510e0426f18a40..6085e0e7c4891b286787ca0f6af68b8bfa6a01b1 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -91,8 +91,8 @@ python-3.7-samplers:
script:
- python -m pip install .
- - pytest test/sampler_test.py --durations 10
- - pytest test/sample_from_the_prior_test.py
+ - pytest test/core/sampler/sampler_run_test.py --durations 10
+ - pytest test/gw/sample_from_the_prior_test.py
# test samplers on python 3.6
python-3.6-samplers:
@@ -101,7 +101,7 @@ python-3.6-samplers:
script:
- python -m pip install .
- - pytest test/sampler_test.py
+ - pytest test/core/sampler/sampler_run_test.py
# Tests run at a fixed schedule rather than on push
scheduled-python-3.7:
@@ -113,9 +113,9 @@ scheduled-python-3.7:
- python -m pip install .
# Run tests which are only done on schedule
- - pytest test/example_test.py
- - pytest test/gw_example_test.py
- - pytest test/sample_from_the_prior_test.py
+ - pytest test/core/example_test.py
+ - pytest test/gw/example_test.py
+ - pytest test/gw/sample_from_the_prior_test.py
plotting:
stage: test
@@ -126,7 +126,7 @@ plotting:
- python -m pip install .
- python -m pip install ligo.skymap
- - pytest test/gw_plot_test.py
+ - pytest test/gw/plot_test.py
pages:
stage: deploy
diff --git a/setup.cfg b/setup.cfg
index 3be0c12d81dd02e9544e2bf520941df0ccd68546..4ba9b6a2a0b6088076a3c7de322b4d3ad763e9a3 100644
--- a/setup.cfg
+++ b/setup.cfg
@@ -5,12 +5,12 @@ ignore = E129 W503 W504 W605 E203 E402
[tool:pytest]
addopts =
- --ignore test/other_test.py
- --ignore test/gw_example_test.py
- --ignore test/example_test.py
- --ignore test/sample_from_the_prior_test.py
- --ignore test/gw_plot_test.py
- --ignore test/sampler_test.py
+ --ignore test/gw/other_test.py
+ --ignore test/gw/example_test.py
+ --ignore test/core/example_test.py
+ --ignore test/gw/sample_from_the_prior_test.py
+ --ignore test/gw/plot_test.py
+ --ignore test/core/sampler/sampler_run_test.py
[metadata]
license_file = LICENSE.md
diff --git a/test/context.py b/test/context.py
deleted file mode 100644
index ed1eb85ae53420d4f127f29b3ed05f89fdf6de0a..0000000000000000000000000000000000000000
--- a/test/context.py
+++ /dev/null
@@ -1,6 +0,0 @@
-import os
-import sys
-
-sys.path.insert(0, os.path.abspath(os.path.join(os.path.dirname(__file__), "..")))
-
-import bilby # noqa
diff --git a/test/core/__init__.py b/test/core/__init__.py
new file mode 100644
index 0000000000000000000000000000000000000000..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391
diff --git a/test/example_test.py b/test/core/example_test.py
similarity index 100%
rename from test/example_test.py
rename to test/core/example_test.py
diff --git a/test/grid_test.py b/test/core/grid_test.py
similarity index 100%
rename from test/grid_test.py
rename to test/core/grid_test.py
diff --git a/test/likelihood_test.py b/test/core/likelihood_test.py
similarity index 100%
rename from test/likelihood_test.py
rename to test/core/likelihood_test.py
diff --git a/test/core/prior/__init__.py b/test/core/prior/__init__.py
new file mode 100644
index 0000000000000000000000000000000000000000..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391
diff --git a/test/core/prior/analytical_test.py b/test/core/prior/analytical_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..9b4a926f802e562fb325c5744d9437ef8ea8fae8
--- /dev/null
+++ b/test/core/prior/analytical_test.py
@@ -0,0 +1,5 @@
+import unittest
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/core/prior/base_test.py b/test/core/prior/base_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..58e1735f6c356c4e042dbb3622a888d0619e2790
--- /dev/null
+++ b/test/core/prior/base_test.py
@@ -0,0 +1,154 @@
+import unittest
+
+import numpy as np
+from mock import Mock
+
+import bilby
+
+
+class TestPriorInstantiationWithoutOptionalPriors(unittest.TestCase):
+ def setUp(self):
+ self.prior = bilby.core.prior.Prior()
+
+ def tearDown(self):
+ del self.prior
+
+ def test_name(self):
+ self.assertIsNone(self.prior.name)
+
+ def test_latex_label(self):
+ self.assertIsNone(self.prior.latex_label)
+
+ def test_is_fixed(self):
+ self.assertFalse(self.prior.is_fixed)
+
+ def test_class_instance(self):
+ self.assertIsInstance(self.prior, bilby.core.prior.Prior)
+
+ def test_magic_call_is_the_same_as_sampling(self):
+ self.prior.sample = Mock(return_value=0.5)
+ self.assertEqual(self.prior.sample(), self.prior())
+
+ def test_base_rescale_method(self):
+ self.assertIsNone(self.prior.rescale(1))
+
+ def test_base_repr(self):
+ """
+ We compare that the strings contain all of the same characters in not
+ necessarily the same order as python2 doesn't conserve the order of the
+ arguments.
+ """
+ self.prior = bilby.core.prior.Prior(
+ name="test_name",
+ latex_label="test_label",
+ minimum=0,
+ maximum=1,
+ check_range_nonzero=True,
+ boundary=None,
+ )
+ expected_string = (
+ "Prior(name='test_name', latex_label='test_label', unit=None, minimum=0, maximum=1, "
+ "check_range_nonzero=True, boundary=None)"
+ )
+ self.assertTrue(sorted(expected_string) == sorted(self.prior.__repr__()))
+
+ def test_base_prob(self):
+ self.assertTrue(np.isnan(self.prior.prob(5)))
+
+ def test_base_ln_prob(self):
+ self.prior.prob = lambda val: val
+ self.assertEqual(np.log(5), self.prior.ln_prob(5))
+
+ def test_is_in_prior(self):
+ self.prior.minimum = 0
+ self.prior.maximum = 1
+ val_below = self.prior.minimum - 0.1
+ val_at_minimum = self.prior.minimum
+ val_in_prior = (self.prior.minimum + self.prior.maximum) / 2.0
+ val_at_maximum = self.prior.maximum
+ val_above = self.prior.maximum + 0.1
+ self.assertTrue(self.prior.is_in_prior_range(val_at_minimum))
+ self.assertTrue(self.prior.is_in_prior_range(val_at_maximum))
+ self.assertTrue(self.prior.is_in_prior_range(val_in_prior))
+ self.assertFalse(self.prior.is_in_prior_range(val_below))
+ self.assertFalse(self.prior.is_in_prior_range(val_above))
+
+ def test_boundary_is_none(self):
+ self.assertIsNone(self.prior.boundary)
+
+
+class TestPriorName(unittest.TestCase):
+ def setUp(self):
+ self.test_name = "test_name"
+ self.prior = bilby.core.prior.Prior(self.test_name)
+
+ def tearDown(self):
+ del self.prior
+ del self.test_name
+
+ def test_name_assignment(self):
+ self.prior.name = "other_name"
+ self.assertEqual(self.prior.name, "other_name")
+
+
+class TestPriorLatexLabel(unittest.TestCase):
+ def setUp(self):
+ self.test_name = "test_name"
+ self.prior = bilby.core.prior.Prior(self.test_name)
+
+ def tearDown(self):
+ del self.test_name
+ del self.prior
+
+ def test_label_assignment(self):
+ test_label = "test_label"
+ self.prior.latex_label = "test_label"
+ self.assertEqual(test_label, self.prior.latex_label)
+
+ def test_default_label_assignment(self):
+ self.prior.name = "chirp_mass"
+ self.prior.latex_label = None
+ self.assertEqual(self.prior.latex_label, "$\mathcal{M}$")
+
+ def test_default_label_assignment_default(self):
+ self.assertTrue(self.prior.latex_label, self.prior.name)
+
+
+class TestPriorIsFixed(unittest.TestCase):
+ def setUp(self):
+ pass
+
+ def tearDown(self):
+ del self.prior
+
+ def test_is_fixed_parent_class(self):
+ self.prior = bilby.core.prior.Prior()
+ self.assertFalse(self.prior.is_fixed)
+
+ def test_is_fixed_delta_function_class(self):
+ self.prior = bilby.core.prior.DeltaFunction(peak=0)
+ self.assertTrue(self.prior.is_fixed)
+
+ def test_is_fixed_uniform_class(self):
+ self.prior = bilby.core.prior.Uniform(minimum=0, maximum=10)
+ self.assertFalse(self.prior.is_fixed)
+
+
+class TestPriorBoundary(unittest.TestCase):
+ def setUp(self):
+ self.prior = bilby.core.prior.Prior(boundary=None)
+
+ def tearDown(self):
+ del self.prior
+
+ def test_set_boundary_valid(self):
+ self.prior.boundary = "periodic"
+ self.assertEqual(self.prior.boundary, "periodic")
+
+ def test_set_boundary_invalid(self):
+ with self.assertRaises(ValueError):
+ self.prior.boundary = "else"
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/core/prior/conditional_test.py b/test/core/prior/conditional_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..0e44fda3691172e1ca8618d7ace3a172de991912
--- /dev/null
+++ b/test/core/prior/conditional_test.py
@@ -0,0 +1,366 @@
+import unittest
+
+import mock
+
+import bilby
+
+
+class TestConditionalPrior(unittest.TestCase):
+ def setUp(self):
+ self.condition_func_call_counter = 0
+
+ def condition_func(reference_parameters, test_variable_1, test_variable_2):
+ self.condition_func_call_counter += 1
+ return {key: value + 1 for key, value in reference_parameters.items()}
+
+ self.condition_func = condition_func
+ self.minimum = 0
+ self.maximum = 5
+ self.test_variable_1 = 0
+ self.test_variable_2 = 1
+ self.prior = bilby.core.prior.ConditionalBasePrior(
+ condition_func=condition_func, minimum=self.minimum, maximum=self.maximum
+ )
+
+ def tearDown(self):
+ del self.condition_func
+ del self.condition_func_call_counter
+ del self.minimum
+ del self.maximum
+ del self.test_variable_1
+ del self.test_variable_2
+ del self.prior
+
+ def test_reference_params(self):
+ self.assertDictEqual(
+ dict(minimum=self.minimum, maximum=self.maximum),
+ self.prior.reference_params,
+ )
+
+ def test_required_variables(self):
+ self.assertListEqual(
+ ["test_variable_1", "test_variable_2"],
+ sorted(self.prior.required_variables),
+ )
+
+ def test_required_variables_no_condition_func(self):
+ self.prior = bilby.core.prior.ConditionalBasePrior(
+ condition_func=None, minimum=self.minimum, maximum=self.maximum
+ )
+ self.assertListEqual([], self.prior.required_variables)
+
+ def test_get_instantiation_dict(self):
+ expected = dict(
+ minimum=0,
+ maximum=5,
+ name=None,
+ latex_label=None,
+ unit=None,
+ boundary=None,
+ condition_func=self.condition_func,
+ )
+ actual = self.prior.get_instantiation_dict()
+ for key, value in expected.items():
+ if key == "condition_func":
+ continue
+ self.assertEqual(value, actual[key])
+
+ def test_update_conditions_correct_variables(self):
+ self.prior.update_conditions(
+ test_variable_1=self.test_variable_1, test_variable_2=self.test_variable_2
+ )
+ self.assertEqual(1, self.condition_func_call_counter)
+ self.assertEqual(self.minimum + 1, self.prior.minimum)
+ self.assertEqual(self.maximum + 1, self.prior.maximum)
+
+ def test_update_conditions_no_variables(self):
+ self.prior.update_conditions(
+ test_variable_1=self.test_variable_1, test_variable_2=self.test_variable_2
+ )
+ self.prior.update_conditions()
+ self.assertEqual(1, self.condition_func_call_counter)
+ self.assertEqual(self.minimum + 1, self.prior.minimum)
+ self.assertEqual(self.maximum + 1, self.prior.maximum)
+
+ def test_update_conditions_illegal_variables(self):
+ with self.assertRaises(bilby.core.prior.IllegalRequiredVariablesException):
+ self.prior.update_conditions(test_parameter_1=self.test_variable_1)
+
+ def test_sample_calls_update_conditions(self):
+ with mock.patch.object(self.prior, "update_conditions") as m:
+ self.prior.sample(
+ 1,
+ test_parameter_1=self.test_variable_1,
+ test_parameter_2=self.test_variable_2,
+ )
+ m.assert_called_with(
+ test_parameter_1=self.test_variable_1,
+ test_parameter_2=self.test_variable_2,
+ )
+
+ def test_rescale_calls_update_conditions(self):
+ with mock.patch.object(self.prior, "update_conditions") as m:
+ self.prior.rescale(
+ 1,
+ test_parameter_1=self.test_variable_1,
+ test_parameter_2=self.test_variable_2,
+ )
+ m.assert_called_with(
+ test_parameter_1=self.test_variable_1,
+ test_parameter_2=self.test_variable_2,
+ )
+
+ def test_rescale_prob_update_conditions(self):
+ with mock.patch.object(self.prior, "update_conditions") as m:
+ self.prior.prob(
+ 1,
+ test_parameter_1=self.test_variable_1,
+ test_parameter_2=self.test_variable_2,
+ )
+ m.assert_called_with(
+ test_parameter_1=self.test_variable_1,
+ test_parameter_2=self.test_variable_2,
+ )
+
+ def test_rescale_ln_prob_update_conditions(self):
+ with mock.patch.object(self.prior, "update_conditions") as m:
+ self.prior.ln_prob(
+ 1,
+ test_parameter_1=self.test_variable_1,
+ test_parameter_2=self.test_variable_2,
+ )
+ calls = [
+ mock.call(
+ test_parameter_1=self.test_variable_1,
+ test_parameter_2=self.test_variable_2,
+ ),
+ mock.call(),
+ ]
+ m.assert_has_calls(calls)
+
+ def test_reset_to_reference_parameters(self):
+ self.prior.minimum = 10
+ self.prior.maximum = 20
+ self.prior.reset_to_reference_parameters()
+ self.assertEqual(self.prior.reference_params["minimum"], self.prior.minimum)
+ self.assertEqual(self.prior.reference_params["maximum"], self.prior.maximum)
+
+ def test_cond_prior_instantiation_no_boundary_prior(self):
+ prior = bilby.core.prior.ConditionalFermiDirac(
+ condition_func=None, sigma=1, mu=1
+ )
+ self.assertIsNone(prior.boundary)
+
+
+class TestConditionalPriorDict(unittest.TestCase):
+ def setUp(self):
+ def condition_func_1(reference_parameters, var_0):
+ return reference_parameters
+
+ def condition_func_2(reference_parameters, var_0, var_1):
+ return reference_parameters
+
+ def condition_func_3(reference_parameters, var_1, var_2):
+ return reference_parameters
+
+ self.minimum = 0
+ self.maximum = 1
+ self.prior_0 = bilby.core.prior.Uniform(
+ minimum=self.minimum, maximum=self.maximum
+ )
+ self.prior_1 = bilby.core.prior.ConditionalUniform(
+ condition_func=condition_func_1, minimum=self.minimum, maximum=self.maximum
+ )
+ self.prior_2 = bilby.core.prior.ConditionalUniform(
+ condition_func=condition_func_2, minimum=self.minimum, maximum=self.maximum
+ )
+ self.prior_3 = bilby.core.prior.ConditionalUniform(
+ condition_func=condition_func_3, minimum=self.minimum, maximum=self.maximum
+ )
+ self.conditional_priors = bilby.core.prior.ConditionalPriorDict(
+ dict(
+ var_3=self.prior_3,
+ var_2=self.prior_2,
+ var_0=self.prior_0,
+ var_1=self.prior_1,
+ )
+ )
+ self.conditional_priors_manually_set_items = (
+ bilby.core.prior.ConditionalPriorDict()
+ )
+ self.test_sample = dict(var_0=0.3, var_1=0.4, var_2=0.5, var_3=0.4)
+ for key, value in dict(
+ var_0=self.prior_0,
+ var_1=self.prior_1,
+ var_2=self.prior_2,
+ var_3=self.prior_3,
+ ).items():
+ self.conditional_priors_manually_set_items[key] = value
+
+ def tearDown(self):
+ del self.minimum
+ del self.maximum
+ del self.prior_0
+ del self.prior_1
+ del self.prior_2
+ del self.prior_3
+ del self.conditional_priors
+ del self.conditional_priors_manually_set_items
+ del self.test_sample
+
+ def test_conditions_resolved_upon_instantiation(self):
+ self.assertListEqual(
+ ["var_0", "var_1", "var_2", "var_3"], self.conditional_priors.sorted_keys
+ )
+
+ def test_conditions_resolved_setting_items(self):
+ self.assertListEqual(
+ ["var_0", "var_1", "var_2", "var_3"],
+ self.conditional_priors_manually_set_items.sorted_keys,
+ )
+
+ def test_unconditional_keys_upon_instantiation(self):
+ self.assertListEqual(["var_0"], self.conditional_priors.unconditional_keys)
+
+ def test_unconditional_keys_setting_items(self):
+ self.assertListEqual(
+ ["var_0"], self.conditional_priors_manually_set_items.unconditional_keys
+ )
+
+ def test_conditional_keys_upon_instantiation(self):
+ self.assertListEqual(
+ ["var_1", "var_2", "var_3"], self.conditional_priors.conditional_keys
+ )
+
+ def test_conditional_keys_setting_items(self):
+ self.assertListEqual(
+ ["var_1", "var_2", "var_3"],
+ self.conditional_priors_manually_set_items.conditional_keys,
+ )
+
+ def test_prob(self):
+ self.assertEqual(1, self.conditional_priors.prob(sample=self.test_sample))
+
+ def test_prob_illegal_conditions(self):
+ del self.conditional_priors["var_0"]
+ with self.assertRaises(bilby.core.prior.IllegalConditionsException):
+ self.conditional_priors.prob(sample=self.test_sample)
+
+ def test_ln_prob(self):
+ self.assertEqual(0, self.conditional_priors.ln_prob(sample=self.test_sample))
+
+ def test_ln_prob_illegal_conditions(self):
+ del self.conditional_priors["var_0"]
+ with self.assertRaises(bilby.core.prior.IllegalConditionsException):
+ self.conditional_priors.ln_prob(sample=self.test_sample)
+
+ def test_sample_subset_all_keys(self):
+ with mock.patch("numpy.random.uniform") as m:
+ m.return_value = 0.5
+ self.assertDictEqual(
+ dict(var_0=0.5, var_1=0.5, var_2=0.5, var_3=0.5),
+ self.conditional_priors.sample_subset(
+ keys=["var_0", "var_1", "var_2", "var_3"]
+ ),
+ )
+
+ def test_sample_illegal_subset(self):
+ with mock.patch("numpy.random.uniform") as m:
+ m.return_value = 0.5
+ with self.assertRaises(bilby.core.prior.IllegalConditionsException):
+ self.conditional_priors.sample_subset(keys=["var_1"])
+
+ def test_sample_multiple(self):
+ def condition_func(reference_params, a):
+ return dict(
+ minimum=reference_params["minimum"],
+ maximum=reference_params["maximum"],
+ alpha=reference_params["alpha"] * a,
+ )
+
+ priors = bilby.core.prior.ConditionalPriorDict()
+ priors["a"] = bilby.core.prior.Uniform(minimum=0, maximum=1)
+ priors["b"] = bilby.core.prior.ConditionalPowerLaw(
+ condition_func=condition_func, minimum=1, maximum=2, alpha=-2
+ )
+ print(priors.sample(2))
+
+ def test_rescale(self):
+ def condition_func_1_rescale(reference_parameters, var_0):
+ if var_0 == 0.5:
+ return dict(minimum=reference_parameters["minimum"], maximum=1)
+ return reference_parameters
+
+ def condition_func_2_rescale(reference_parameters, var_0, var_1):
+ if var_0 == 0.5 and var_1 == 0.5:
+ return dict(minimum=reference_parameters["minimum"], maximum=1)
+ return reference_parameters
+
+ def condition_func_3_rescale(reference_parameters, var_1, var_2):
+ if var_1 == 0.5 and var_2 == 0.5:
+ return dict(minimum=reference_parameters["minimum"], maximum=1)
+ return reference_parameters
+
+ self.prior_0 = bilby.core.prior.Uniform(minimum=self.minimum, maximum=1)
+ self.prior_1 = bilby.core.prior.ConditionalUniform(
+ condition_func=condition_func_1_rescale, minimum=self.minimum, maximum=2
+ )
+ self.prior_2 = bilby.core.prior.ConditionalUniform(
+ condition_func=condition_func_2_rescale, minimum=self.minimum, maximum=2
+ )
+ self.prior_3 = bilby.core.prior.ConditionalUniform(
+ condition_func=condition_func_3_rescale, minimum=self.minimum, maximum=2
+ )
+ self.conditional_priors = bilby.core.prior.ConditionalPriorDict(
+ dict(
+ var_3=self.prior_3,
+ var_2=self.prior_2,
+ var_0=self.prior_0,
+ var_1=self.prior_1,
+ )
+ )
+ ref_variables = [0.5, 0.5, 0.5, 0.5]
+ res = self.conditional_priors.rescale(
+ keys=list(self.test_sample.keys()), theta=ref_variables
+ )
+ self.assertListEqual(ref_variables, res)
+
+ def test_rescale_illegal_conditions(self):
+ del self.conditional_priors["var_0"]
+ with self.assertRaises(bilby.core.prior.IllegalConditionsException):
+ self.conditional_priors.rescale(
+ keys=list(self.test_sample.keys()),
+ theta=list(self.test_sample.values()),
+ )
+
+ def test_combined_conditions(self):
+ def d_condition_func(reference_params, a, b, c):
+ return dict(
+ minimum=reference_params["minimum"], maximum=reference_params["maximum"]
+ )
+
+ def a_condition_func(reference_params, b, c):
+ return dict(
+ minimum=reference_params["minimum"], maximum=reference_params["maximum"]
+ )
+
+ priors = bilby.core.prior.ConditionalPriorDict()
+
+ priors["a"] = bilby.core.prior.ConditionalUniform(
+ condition_func=a_condition_func, minimum=0, maximum=1
+ )
+
+ priors["b"] = bilby.core.prior.LogUniform(minimum=1, maximum=10)
+
+ priors["d"] = bilby.core.prior.ConditionalUniform(
+ condition_func=d_condition_func, minimum=0.0, maximum=1.0
+ )
+
+ priors["c"] = bilby.core.prior.LogUniform(minimum=1, maximum=10)
+ priors.sample()
+ res = priors.rescale(["a", "b", "d", "c"], [0.5, 0.5, 0.5, 0.5])
+ print(res)
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/core/prior/dict_test.py b/test/core/prior/dict_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..4b45bdfe2421d80a30bbe1e3dba54b7a490f5239
--- /dev/null
+++ b/test/core/prior/dict_test.py
@@ -0,0 +1,458 @@
+import os
+import unittest
+
+import numpy as np
+
+import bilby
+
+
+class TestPriorDict(unittest.TestCase):
+ def setUp(self):
+ self.first_prior = bilby.core.prior.Uniform(
+ name="a", minimum=0, maximum=1, unit="kg", boundary=None
+ )
+ self.second_prior = bilby.core.prior.PowerLaw(
+ name="b", alpha=3, minimum=1, maximum=2, unit="m/s", boundary=None
+ )
+ self.third_prior = bilby.core.prior.DeltaFunction(name="c", peak=42, unit="m")
+ self.priors = dict(
+ mass=self.first_prior, speed=self.second_prior, length=self.third_prior
+ )
+ self.prior_set_from_dict = bilby.core.prior.PriorDict(dictionary=self.priors)
+ self.default_prior_file = os.path.join(
+ os.path.dirname(os.path.realpath(__file__)),
+ "prior_files/precessing_spins_bbh.prior",
+ )
+ self.prior_set_from_file = bilby.core.prior.PriorDict(
+ filename=self.default_prior_file
+ )
+
+ def tearDown(self):
+ del self.first_prior
+ del self.second_prior
+ del self.third_prior
+ del self.priors
+ del self.prior_set_from_dict
+ del self.default_prior_file
+ del self.prior_set_from_file
+
+ def test_copy(self):
+ priors = bilby.core.prior.PriorDict(self.priors)
+ self.assertEqual(priors, priors.copy())
+
+ def test_prior_set(self):
+ priors_dict = bilby.core.prior.PriorDict(self.priors)
+ priors_set = bilby.core.prior.PriorSet(self.priors)
+ self.assertEqual(priors_dict, priors_set)
+
+ def test_prior_set_is_dict(self):
+ self.assertIsInstance(self.prior_set_from_dict, dict)
+
+ def test_prior_set_has_correct_length(self):
+ self.assertEqual(3, len(self.prior_set_from_dict))
+
+ def test_prior_set_has_expected_priors(self):
+ self.assertDictEqual(self.priors, dict(self.prior_set_from_dict))
+
+ def test_read_from_file(self):
+ expected = dict(
+ mass_1=bilby.core.prior.Constraint(
+ name="mass_1",
+ minimum=5,
+ maximum=100,
+ ),
+ mass_2=bilby.core.prior.Constraint(
+ name="mass_2",
+ minimum=5,
+ maximum=100,
+ ),
+ chirp_mass=bilby.core.prior.Uniform(
+ name="chirp_mass",
+ minimum=25,
+ maximum=100,
+ latex_label="$\mathcal{M}$",
+ ),
+ mass_ratio=bilby.core.prior.Uniform(
+ name="mass_ratio",
+ minimum=0.125,
+ maximum=1,
+ latex_label="$q$",
+ unit=None,
+ ),
+ a_1=bilby.core.prior.Uniform(
+ name="a_1", minimum=0, maximum=0.99
+ ),
+ a_2=bilby.core.prior.Uniform(
+ name="a_2", minimum=0, maximum=0.99
+ ),
+ tilt_1=bilby.core.prior.Sine(name="tilt_1"),
+ tilt_2=bilby.core.prior.Sine(name="tilt_2"),
+ phi_12=bilby.core.prior.Uniform(
+ name="phi_12", minimum=0, maximum=2 * np.pi, boundary="periodic"
+ ),
+ phi_jl=bilby.core.prior.Uniform(
+ name="phi_jl", minimum=0, maximum=2 * np.pi, boundary="periodic"
+ ),
+ luminosity_distance=bilby.gw.prior.UniformSourceFrame(
+ name="luminosity_distance",
+ minimum=1e2,
+ maximum=5e3,
+ unit="Mpc",
+ boundary=None,
+ ),
+ dec=bilby.core.prior.Cosine(name="dec"),
+ ra=bilby.core.prior.Uniform(
+ name="ra", minimum=0, maximum=2 * np.pi, boundary="periodic"
+ ),
+ theta_jn=bilby.core.prior.Sine(name="theta_jn"),
+ psi=bilby.core.prior.Uniform(
+ name="psi", minimum=0, maximum=np.pi, boundary="periodic"
+ ),
+ phase=bilby.core.prior.Uniform(
+ name="phase", minimum=0, maximum=2 * np.pi, boundary="periodic"
+ ),
+ )
+ self.assertDictEqual(expected, self.prior_set_from_file)
+
+ def test_to_file(self):
+ """
+ We compare that the strings contain all of the same characters in not
+ necessarily the same order as python2 doesn't conserve the order of the
+ arguments.
+ """
+ expected = [
+ "length = DeltaFunction(peak=42, name='c', latex_label='c', unit='m')\n",
+ "speed = PowerLaw(alpha=3, minimum=1, maximum=2, name='b', latex_label='b', "
+ "unit='m/s', boundary=None)\n",
+ "mass = Uniform(minimum=0, maximum=1, name='a', latex_label='a', "
+ "unit='kg', boundary=None)\n",
+ ]
+ self.prior_set_from_dict.to_file(outdir="prior_files", label="to_file_test")
+ with open("prior_files/to_file_test.prior") as f:
+ for i, line in enumerate(f.readlines()):
+ self.assertTrue(
+ any([sorted(line) == sorted(expect) for expect in expected])
+ )
+
+ def test_from_dict_with_string(self):
+ string_prior = (
+ "PowerLaw(name='b', alpha=3, minimum=1, maximum=2, unit='m/s', "
+ "boundary=None)"
+ )
+ self.priors["speed"] = string_prior
+ from_dict = bilby.core.prior.PriorDict(dictionary=self.priors)
+ self.assertDictEqual(self.prior_set_from_dict, from_dict)
+
+ def test_convert_floats_to_delta_functions(self):
+ self.prior_set_from_dict["d"] = 5
+ self.prior_set_from_dict["e"] = 7.3
+ self.prior_set_from_dict["f"] = "unconvertable"
+ self.prior_set_from_dict.convert_floats_to_delta_functions()
+ expected = dict(
+ mass=bilby.core.prior.Uniform(
+ name="a", minimum=0, maximum=1, unit="kg", boundary=None
+ ),
+ speed=bilby.core.prior.PowerLaw(
+ name="b", alpha=3, minimum=1, maximum=2, unit="m/s", boundary=None
+ ),
+ length=bilby.core.prior.DeltaFunction(name="c", peak=42, unit="m"),
+ d=bilby.core.prior.DeltaFunction(peak=5),
+ e=bilby.core.prior.DeltaFunction(peak=7.3),
+ f="unconvertable",
+ )
+ self.assertDictEqual(expected, self.prior_set_from_dict)
+
+ def test_prior_set_from_dict_but_using_a_string(self):
+ prior_set = bilby.core.prior.PriorDict(dictionary=self.default_prior_file)
+ expected = bilby.core.prior.PriorDict(
+ dict(
+ mass_1=bilby.core.prior.Constraint(
+ name="mass_1",
+ minimum=5,
+ maximum=100,
+ ),
+ mass_2=bilby.core.prior.Constraint(
+ name="mass_2",
+ minimum=5,
+ maximum=100,
+ ),
+ chirp_mass=bilby.core.prior.Uniform(
+ name="chirp_mass",
+ minimum=25,
+ maximum=100,
+ latex_label="$\mathcal{M}$",
+ ),
+ mass_ratio=bilby.core.prior.Uniform(
+ name="mass_ratio",
+ minimum=0.125,
+ maximum=1,
+ latex_label="$q$",
+ unit=None,
+ ),
+ a_1=bilby.core.prior.Uniform(
+ name="a_1", minimum=0, maximum=0.99,
+ ),
+ a_2=bilby.core.prior.Uniform(
+ name="a_2", minimum=0, maximum=0.99,
+ ),
+ tilt_1=bilby.core.prior.Sine(name="tilt_1"),
+ tilt_2=bilby.core.prior.Sine(name="tilt_2"),
+ phi_12=bilby.core.prior.Uniform(
+ name="phi_12", minimum=0, maximum=2 * np.pi, boundary="periodic"
+ ),
+ phi_jl=bilby.core.prior.Uniform(
+ name="phi_jl", minimum=0, maximum=2 * np.pi, boundary="periodic"
+ ),
+ luminosity_distance=bilby.gw.prior.UniformSourceFrame(
+ name="luminosity_distance",
+ minimum=1e2,
+ maximum=5e3,
+ unit="Mpc",
+ boundary=None,
+ ),
+ dec=bilby.core.prior.Cosine(name="dec"),
+ ra=bilby.core.prior.Uniform(
+ name="ra", minimum=0, maximum=2 * np.pi, boundary="periodic"
+ ),
+ theta_jn=bilby.core.prior.Sine(name="theta_jn"),
+ psi=bilby.core.prior.Uniform(
+ name="psi", minimum=0, maximum=np.pi, boundary="periodic"
+ ),
+ phase=bilby.core.prior.Uniform(
+ name="phase", minimum=0, maximum=2 * np.pi, boundary="periodic"
+ ),
+ )
+ )
+ all_keys = set(prior_set.keys()).union(set(expected.keys()))
+ for key in all_keys:
+ self.assertEqual(expected[key], prior_set[key])
+
+ def test_dict_argument_is_not_string_or_dict(self):
+ with self.assertRaises(ValueError):
+ bilby.core.prior.PriorDict(dictionary=list())
+
+ def test_sample_subset_correct_size(self):
+ size = 7
+ samples = self.prior_set_from_dict.sample_subset(
+ keys=self.prior_set_from_dict.keys(), size=size
+ )
+ self.assertEqual(len(self.prior_set_from_dict), len(samples))
+ for key in samples:
+ self.assertEqual(size, len(samples[key]))
+
+ def test_sample_subset_correct_size_when_non_priors_in_dict(self):
+ self.prior_set_from_dict["asdf"] = "not_a_prior"
+ samples = self.prior_set_from_dict.sample_subset(
+ keys=self.prior_set_from_dict.keys()
+ )
+ self.assertEqual(len(self.prior_set_from_dict) - 1, len(samples))
+
+ def test_sample_subset_with_actual_subset(self):
+ size = 3
+ samples = self.prior_set_from_dict.sample_subset(keys=["length"], size=size)
+ expected = dict(length=np.array([42.0, 42.0, 42.0]))
+ self.assertTrue(np.array_equal(expected["length"], samples["length"]))
+
+ def test_sample_subset_constrained_as_array(self):
+ size = 3
+ keys = ["mass", "speed"]
+ out = self.prior_set_from_dict.sample_subset_constrained_as_array(keys, size)
+ self.assertTrue(isinstance(out, np.ndarray))
+ self.assertTrue(out.shape == (len(keys), size))
+
+ def test_sample(self):
+ size = 7
+ np.random.seed(42)
+ samples1 = self.prior_set_from_dict.sample_subset(
+ keys=self.prior_set_from_dict.keys(), size=size
+ )
+ np.random.seed(42)
+ samples2 = self.prior_set_from_dict.sample(size=size)
+ self.assertEqual(set(samples1.keys()), set(samples2.keys()))
+ for key in samples1:
+ self.assertTrue(np.array_equal(samples1[key], samples2[key]))
+
+ def test_prob(self):
+ samples = self.prior_set_from_dict.sample_subset(keys=["mass", "speed"])
+ expected = self.first_prior.prob(samples["mass"]) * self.second_prior.prob(
+ samples["speed"]
+ )
+ self.assertEqual(expected, self.prior_set_from_dict.prob(samples))
+
+ def test_ln_prob(self):
+ samples = self.prior_set_from_dict.sample_subset(keys=["mass", "speed"])
+ expected = self.first_prior.ln_prob(
+ samples["mass"]
+ ) + self.second_prior.ln_prob(samples["speed"])
+ self.assertEqual(expected, self.prior_set_from_dict.ln_prob(samples))
+
+ def test_rescale(self):
+ theta = [0.5, 0.5, 0.5]
+ expected = [
+ self.first_prior.rescale(0.5),
+ self.second_prior.rescale(0.5),
+ self.third_prior.rescale(0.5),
+ ]
+ self.assertListEqual(
+ sorted(expected),
+ sorted(
+ self.prior_set_from_dict.rescale(
+ keys=self.prior_set_from_dict.keys(), theta=theta
+ )
+ ),
+ )
+
+ def test_redundancy(self):
+ for key in self.prior_set_from_dict.keys():
+ self.assertFalse(self.prior_set_from_dict.test_redundancy(key=key))
+
+
+class TestJsonIO(unittest.TestCase):
+ def setUp(self):
+ mvg = bilby.core.prior.MultivariateGaussianDist(
+ names=["testa", "testb"],
+ mus=[1, 1],
+ covs=np.array([[2.0, 0.5], [0.5, 2.0]]),
+ weights=1.0,
+ )
+ mvn = bilby.core.prior.MultivariateGaussianDist(
+ names=["testa", "testb"],
+ mus=[1, 1],
+ covs=np.array([[2.0, 0.5], [0.5, 2.0]]),
+ weights=1.0,
+ )
+ hp_map_file = os.path.join(
+ os.path.dirname(os.path.realpath(__file__)),
+ "prior_files/GW150914_testing_skymap.fits",
+ )
+ hp_dist = bilby.gw.prior.HealPixMapPriorDist(
+ hp_map_file, names=["testra", "testdec"]
+ )
+ hp_3d_dist = bilby.gw.prior.HealPixMapPriorDist(
+ hp_map_file, names=["testra", "testdec", "testdistance"], distance=True
+ )
+
+ self.priors = bilby.core.prior.PriorDict(
+ dict(
+ aa=bilby.core.prior.DeltaFunction(name="test", unit="unit", peak=1),
+ bb=bilby.core.prior.Gaussian(name="test", unit="unit", mu=0, sigma=1),
+ cc=bilby.core.prior.Normal(name="test", unit="unit", mu=0, sigma=1),
+ dd=bilby.core.prior.PowerLaw(
+ name="test", unit="unit", alpha=0, minimum=0, maximum=1
+ ),
+ ee=bilby.core.prior.PowerLaw(
+ name="test", unit="unit", alpha=-1, minimum=0.5, maximum=1
+ ),
+ ff=bilby.core.prior.PowerLaw(
+ name="test", unit="unit", alpha=2, minimum=1, maximum=1e2
+ ),
+ gg=bilby.core.prior.Uniform(
+ name="test", unit="unit", minimum=0, maximum=1
+ ),
+ hh=bilby.core.prior.LogUniform(
+ name="test", unit="unit", minimum=5e0, maximum=1e2
+ ),
+ ii=bilby.gw.prior.UniformComovingVolume(
+ name="redshift", minimum=0.1, maximum=1.0
+ ),
+ jj=bilby.gw.prior.UniformSourceFrame(
+ name="luminosity_distance", minimum=1.0, maximum=1000.0
+ ),
+ kk=bilby.core.prior.Sine(name="test", unit="unit"),
+ ll=bilby.core.prior.Cosine(name="test", unit="unit"),
+ m=bilby.core.prior.Interped(
+ name="test",
+ unit="unit",
+ xx=np.linspace(0, 10, 1000),
+ yy=np.linspace(0, 10, 1000) ** 4,
+ minimum=3,
+ maximum=5,
+ ),
+ nn=bilby.core.prior.TruncatedGaussian(
+ name="test", unit="unit", mu=1, sigma=0.4, minimum=-1, maximum=1
+ ),
+ oo=bilby.core.prior.TruncatedNormal(
+ name="test", unit="unit", mu=1, sigma=0.4, minimum=-1, maximum=1
+ ),
+ pp=bilby.core.prior.HalfGaussian(name="test", unit="unit", sigma=1),
+ qq=bilby.core.prior.HalfNormal(name="test", unit="unit", sigma=1),
+ rr=bilby.core.prior.LogGaussian(name="test", unit="unit", mu=0, sigma=1),
+ ss=bilby.core.prior.LogNormal(name="test", unit="unit", mu=0, sigma=1),
+ tt=bilby.core.prior.Exponential(name="test", unit="unit", mu=1),
+ uu=bilby.core.prior.StudentT(
+ name="test", unit="unit", df=3, mu=0, scale=1
+ ),
+ vv=bilby.core.prior.Beta(name="test", unit="unit", alpha=2.0, beta=2.0),
+ xx=bilby.core.prior.Logistic(name="test", unit="unit", mu=0, scale=1),
+ yy=bilby.core.prior.Cauchy(name="test", unit="unit", alpha=0, beta=1),
+ zz=bilby.core.prior.Lorentzian(
+ name="test", unit="unit", alpha=0, beta=1
+ ),
+ a_=bilby.core.prior.Gamma(name="test", unit="unit", k=1, theta=1),
+ ab=bilby.core.prior.ChiSquared(name="test", unit="unit", nu=2),
+ ac=bilby.gw.prior.AlignedSpin(name="test", unit="unit"),
+ ad=bilby.core.prior.MultivariateGaussian(
+ dist=mvg, name="testa", unit="unit"
+ ),
+ ae=bilby.core.prior.MultivariateGaussian(
+ dist=mvg, name="testb", unit="unit"
+ ),
+ af=bilby.core.prior.MultivariateNormal(
+ dist=mvn, name="testa", unit="unit"
+ ),
+ ag=bilby.core.prior.MultivariateNormal(
+ dist=mvn, name="testb", unit="unit"
+ ),
+ ah=bilby.gw.prior.HealPixPrior(
+ dist=hp_dist, name="testra", unit="unit"
+ ),
+ ai=bilby.gw.prior.HealPixPrior(
+ dist=hp_dist, name="testdec", unit="unit"
+ ),
+ aj=bilby.gw.prior.HealPixPrior(
+ dist=hp_3d_dist, name="testra", unit="unit"
+ ),
+ ak=bilby.gw.prior.HealPixPrior(
+ dist=hp_3d_dist, name="testdec", unit="unit"
+ ),
+ al=bilby.gw.prior.HealPixPrior(
+ dist=hp_3d_dist, name="testdistance", unit="unit"
+ ),
+ )
+ )
+
+ def test_read_write_to_json(self):
+ """ Interped prior is removed as there is numerical error in the recovered prior."""
+ self.priors.to_json(outdir="prior_files", label="json_test")
+ new_priors = bilby.core.prior.PriorDict.from_json(
+ filename="prior_files/json_test_prior.json"
+ )
+ old_interped = self.priors.pop("m")
+ new_interped = new_priors.pop("m")
+ self.assertDictEqual(self.priors, new_priors)
+ self.assertLess(max(abs(old_interped.xx - new_interped.xx)), 1e-15)
+ self.assertLess(max(abs(old_interped.yy - new_interped.yy)), 1e-15)
+
+
+class TestLoadPrior(unittest.TestCase):
+ def test_load_prior_with_float(self):
+ filename = os.path.join(
+ os.path.dirname(os.path.realpath(__file__)),
+ "prior_files/prior_with_floats.prior",
+ )
+ prior = bilby.core.prior.PriorDict(filename)
+ self.assertTrue("mass_1" in prior)
+ self.assertTrue("mass_2" in prior)
+ self.assertTrue(prior["mass_2"].peak == 20)
+
+ def test_load_prior_with_parentheses(self):
+ filename = os.path.join(
+ os.path.dirname(os.path.realpath(__file__)),
+ "prior_files/prior_with_parentheses.prior",
+ )
+ prior = bilby.core.prior.PriorDict(filename)
+ self.assertTrue(isinstance(prior["logA"], bilby.core.prior.Uniform))
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/core/prior/interpolated_test.py b/test/core/prior/interpolated_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..9b4a926f802e562fb325c5744d9437ef8ea8fae8
--- /dev/null
+++ b/test/core/prior/interpolated_test.py
@@ -0,0 +1,5 @@
+import unittest
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/core/prior/joint_test.py b/test/core/prior/joint_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..9b4a926f802e562fb325c5744d9437ef8ea8fae8
--- /dev/null
+++ b/test/core/prior/joint_test.py
@@ -0,0 +1,5 @@
+import unittest
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/prior_files/GW150914_testing_skymap.fits b/test/core/prior/prior_files/GW150914_testing_skymap.fits
similarity index 100%
rename from test/prior_files/GW150914_testing_skymap.fits
rename to test/core/prior/prior_files/GW150914_testing_skymap.fits
diff --git a/test/prior_files/aligned_spins_bbh.prior b/test/core/prior/prior_files/aligned_spins_bbh.prior
similarity index 100%
rename from test/prior_files/aligned_spins_bbh.prior
rename to test/core/prior/prior_files/aligned_spins_bbh.prior
diff --git a/test/prior_files/aligned_spins_bbh_tides_on.prior b/test/core/prior/prior_files/aligned_spins_bbh_tides_on.prior
similarity index 100%
rename from test/prior_files/aligned_spins_bbh_tides_on.prior
rename to test/core/prior/prior_files/aligned_spins_bbh_tides_on.prior
diff --git a/test/prior_files/aligned_spins_bns.prior b/test/core/prior/prior_files/aligned_spins_bns.prior
similarity index 100%
rename from test/prior_files/aligned_spins_bns.prior
rename to test/core/prior/prior_files/aligned_spins_bns.prior
diff --git a/test/prior_files/aligned_spins_bns_tides_on.prior b/test/core/prior/prior_files/aligned_spins_bns_tides_on.prior
similarity index 100%
rename from test/prior_files/aligned_spins_bns_tides_on.prior
rename to test/core/prior/prior_files/aligned_spins_bns_tides_on.prior
diff --git a/test/prior_files/precessing_spins_bbh.prior b/test/core/prior/prior_files/precessing_spins_bbh.prior
similarity index 100%
rename from test/prior_files/precessing_spins_bbh.prior
rename to test/core/prior/prior_files/precessing_spins_bbh.prior
diff --git a/test/prior_files/precessing_spins_bbh_tides_on.prior b/test/core/prior/prior_files/precessing_spins_bbh_tides_on.prior
similarity index 100%
rename from test/prior_files/precessing_spins_bbh_tides_on.prior
rename to test/core/prior/prior_files/precessing_spins_bbh_tides_on.prior
diff --git a/test/prior_files/precessing_spins_bns.prior b/test/core/prior/prior_files/precessing_spins_bns.prior
similarity index 100%
rename from test/prior_files/precessing_spins_bns.prior
rename to test/core/prior/prior_files/precessing_spins_bns.prior
diff --git a/test/prior_files/precessing_spins_bns_tides_on.prior b/test/core/prior/prior_files/precessing_spins_bns_tides_on.prior
similarity index 100%
rename from test/prior_files/precessing_spins_bns_tides_on.prior
rename to test/core/prior/prior_files/precessing_spins_bns_tides_on.prior
diff --git a/test/prior_files/prior_with_floats.prior b/test/core/prior/prior_files/prior_with_floats.prior
similarity index 100%
rename from test/prior_files/prior_with_floats.prior
rename to test/core/prior/prior_files/prior_with_floats.prior
diff --git a/test/prior_files/prior_with_parentheses.prior b/test/core/prior/prior_files/prior_with_parentheses.prior
similarity index 100%
rename from test/prior_files/prior_with_parentheses.prior
rename to test/core/prior/prior_files/prior_with_parentheses.prior
diff --git a/test/prior_test.py b/test/core/prior/prior_test.py
similarity index 50%
rename from test/prior_test.py
rename to test/core/prior/prior_test.py
index 6222752d40e1c314ede933e831c3d0177026169d..01892a08ec03c34c36b27ed679ca95342717d3a0 100644
--- a/test/prior_test.py
+++ b/test/core/prior/prior_test.py
@@ -2,156 +2,11 @@ from __future__ import absolute_import, division
import bilby
import unittest
from mock import Mock
-import mock
import numpy as np
import os
import scipy.stats as ss
-class TestPriorInstantiationWithoutOptionalPriors(unittest.TestCase):
- def setUp(self):
- self.prior = bilby.core.prior.Prior()
-
- def tearDown(self):
- del self.prior
-
- def test_name(self):
- self.assertIsNone(self.prior.name)
-
- def test_latex_label(self):
- self.assertIsNone(self.prior.latex_label)
-
- def test_is_fixed(self):
- self.assertFalse(self.prior.is_fixed)
-
- def test_class_instance(self):
- self.assertIsInstance(self.prior, bilby.core.prior.Prior)
-
- def test_magic_call_is_the_same_as_sampling(self):
- self.prior.sample = Mock(return_value=0.5)
- self.assertEqual(self.prior.sample(), self.prior())
-
- def test_base_rescale_method(self):
- self.assertIsNone(self.prior.rescale(1))
-
- def test_base_repr(self):
- """
- We compare that the strings contain all of the same characters in not
- necessarily the same order as python2 doesn't conserve the order of the
- arguments.
- """
- self.prior = bilby.core.prior.Prior(
- name="test_name",
- latex_label="test_label",
- minimum=0,
- maximum=1,
- check_range_nonzero=True,
- boundary=None,
- )
- expected_string = (
- "Prior(name='test_name', latex_label='test_label', unit=None, minimum=0, maximum=1, "
- "check_range_nonzero=True, boundary=None)"
- )
- self.assertTrue(sorted(expected_string) == sorted(self.prior.__repr__()))
-
- def test_base_prob(self):
- self.assertTrue(np.isnan(self.prior.prob(5)))
-
- def test_base_ln_prob(self):
- self.prior.prob = lambda val: val
- self.assertEqual(np.log(5), self.prior.ln_prob(5))
-
- def test_is_in_prior(self):
- self.prior.minimum = 0
- self.prior.maximum = 1
- val_below = self.prior.minimum - 0.1
- val_at_minimum = self.prior.minimum
- val_in_prior = (self.prior.minimum + self.prior.maximum) / 2.0
- val_at_maximum = self.prior.maximum
- val_above = self.prior.maximum + 0.1
- self.assertTrue(self.prior.is_in_prior_range(val_at_minimum))
- self.assertTrue(self.prior.is_in_prior_range(val_at_maximum))
- self.assertTrue(self.prior.is_in_prior_range(val_in_prior))
- self.assertFalse(self.prior.is_in_prior_range(val_below))
- self.assertFalse(self.prior.is_in_prior_range(val_above))
-
- def test_boundary_is_none(self):
- self.assertIsNone(self.prior.boundary)
-
-
-class TestPriorName(unittest.TestCase):
- def setUp(self):
- self.test_name = "test_name"
- self.prior = bilby.core.prior.Prior(self.test_name)
-
- def tearDown(self):
- del self.prior
- del self.test_name
-
- def test_name_assignment(self):
- self.prior.name = "other_name"
- self.assertEqual(self.prior.name, "other_name")
-
-
-class TestPriorLatexLabel(unittest.TestCase):
- def setUp(self):
- self.test_name = "test_name"
- self.prior = bilby.core.prior.Prior(self.test_name)
-
- def tearDown(self):
- del self.test_name
- del self.prior
-
- def test_label_assignment(self):
- test_label = "test_label"
- self.prior.latex_label = "test_label"
- self.assertEqual(test_label, self.prior.latex_label)
-
- def test_default_label_assignment(self):
- self.prior.name = "chirp_mass"
- self.prior.latex_label = None
- self.assertEqual(self.prior.latex_label, "$\mathcal{M}$")
-
- def test_default_label_assignment_default(self):
- self.assertTrue(self.prior.latex_label, self.prior.name)
-
-
-class TestPriorIsFixed(unittest.TestCase):
- def setUp(self):
- pass
-
- def tearDown(self):
- del self.prior
-
- def test_is_fixed_parent_class(self):
- self.prior = bilby.core.prior.Prior()
- self.assertFalse(self.prior.is_fixed)
-
- def test_is_fixed_delta_function_class(self):
- self.prior = bilby.core.prior.DeltaFunction(peak=0)
- self.assertTrue(self.prior.is_fixed)
-
- def test_is_fixed_uniform_class(self):
- self.prior = bilby.core.prior.Uniform(minimum=0, maximum=10)
- self.assertFalse(self.prior.is_fixed)
-
-
-class TestPriorBoundary(unittest.TestCase):
- def setUp(self):
- self.prior = bilby.core.prior.Prior(boundary=None)
-
- def tearDown(self):
- del self.prior
-
- def test_set_boundary_valid(self):
- self.prior.boundary = "periodic"
- self.assertEqual(self.prior.boundary, "periodic")
-
- def test_set_boundary_invalid(self):
- with self.assertRaises(ValueError):
- self.prior.boundary = "else"
-
-
class TestPriorClasses(unittest.TestCase):
def setUp(self):
@@ -896,307 +751,6 @@ class TestPriorClasses(unittest.TestCase):
self.assertTrue(min(prior.sample(10000)) > prior.minimum)
-class TestPriorDict(unittest.TestCase):
- def setUp(self):
- self.first_prior = bilby.core.prior.Uniform(
- name="a", minimum=0, maximum=1, unit="kg", boundary=None
- )
- self.second_prior = bilby.core.prior.PowerLaw(
- name="b", alpha=3, minimum=1, maximum=2, unit="m/s", boundary=None
- )
- self.third_prior = bilby.core.prior.DeltaFunction(name="c", peak=42, unit="m")
- self.priors = dict(
- mass=self.first_prior, speed=self.second_prior, length=self.third_prior
- )
- self.prior_set_from_dict = bilby.core.prior.PriorDict(dictionary=self.priors)
- self.default_prior_file = os.path.join(
- os.path.dirname(os.path.realpath(__file__)),
- "prior_files/precessing_spins_bbh.prior",
- )
- self.prior_set_from_file = bilby.core.prior.PriorDict(
- filename=self.default_prior_file
- )
-
- def tearDown(self):
- del self.first_prior
- del self.second_prior
- del self.third_prior
- del self.priors
- del self.prior_set_from_dict
- del self.default_prior_file
- del self.prior_set_from_file
-
- def test_copy(self):
- priors = bilby.core.prior.PriorDict(self.priors)
- self.assertEqual(priors, priors.copy())
-
- def test_prior_set(self):
- priors_dict = bilby.core.prior.PriorDict(self.priors)
- priors_set = bilby.core.prior.PriorSet(self.priors)
- self.assertEqual(priors_dict, priors_set)
-
- def test_prior_set_is_dict(self):
- self.assertIsInstance(self.prior_set_from_dict, dict)
-
- def test_prior_set_has_correct_length(self):
- self.assertEqual(3, len(self.prior_set_from_dict))
-
- def test_prior_set_has_expected_priors(self):
- self.assertDictEqual(self.priors, dict(self.prior_set_from_dict))
-
- def test_read_from_file(self):
- expected = dict(
- mass_1=bilby.core.prior.Constraint(
- name="mass_1",
- minimum=5,
- maximum=100,
- ),
- mass_2=bilby.core.prior.Constraint(
- name="mass_2",
- minimum=5,
- maximum=100,
- ),
- chirp_mass=bilby.core.prior.Uniform(
- name="chirp_mass",
- minimum=25,
- maximum=100,
- latex_label="$\mathcal{M}$",
- ),
- mass_ratio=bilby.core.prior.Uniform(
- name="mass_ratio",
- minimum=0.125,
- maximum=1,
- latex_label="$q$",
- unit=None,
- ),
- a_1=bilby.core.prior.Uniform(
- name="a_1", minimum=0, maximum=0.99
- ),
- a_2=bilby.core.prior.Uniform(
- name="a_2", minimum=0, maximum=0.99
- ),
- tilt_1=bilby.core.prior.Sine(name="tilt_1"),
- tilt_2=bilby.core.prior.Sine(name="tilt_2"),
- phi_12=bilby.core.prior.Uniform(
- name="phi_12", minimum=0, maximum=2 * np.pi, boundary="periodic"
- ),
- phi_jl=bilby.core.prior.Uniform(
- name="phi_jl", minimum=0, maximum=2 * np.pi, boundary="periodic"
- ),
- luminosity_distance=bilby.gw.prior.UniformSourceFrame(
- name="luminosity_distance",
- minimum=1e2,
- maximum=5e3,
- unit="Mpc",
- boundary=None,
- ),
- dec=bilby.core.prior.Cosine(name="dec"),
- ra=bilby.core.prior.Uniform(
- name="ra", minimum=0, maximum=2 * np.pi, boundary="periodic"
- ),
- theta_jn=bilby.core.prior.Sine(name="theta_jn"),
- psi=bilby.core.prior.Uniform(
- name="psi", minimum=0, maximum=np.pi, boundary="periodic"
- ),
- phase=bilby.core.prior.Uniform(
- name="phase", minimum=0, maximum=2 * np.pi, boundary="periodic"
- ),
- )
- self.assertDictEqual(expected, self.prior_set_from_file)
-
- def test_to_file(self):
- """
- We compare that the strings contain all of the same characters in not
- necessarily the same order as python2 doesn't conserve the order of the
- arguments.
- """
- expected = [
- "length = DeltaFunction(peak=42, name='c', latex_label='c', unit='m')\n",
- "speed = PowerLaw(alpha=3, minimum=1, maximum=2, name='b', latex_label='b', "
- "unit='m/s', boundary=None)\n",
- "mass = Uniform(minimum=0, maximum=1, name='a', latex_label='a', "
- "unit='kg', boundary=None)\n",
- ]
- self.prior_set_from_dict.to_file(outdir="prior_files", label="to_file_test")
- with open("prior_files/to_file_test.prior") as f:
- for i, line in enumerate(f.readlines()):
- self.assertTrue(
- any([sorted(line) == sorted(expect) for expect in expected])
- )
-
- def test_from_dict_with_string(self):
- string_prior = (
- "PowerLaw(name='b', alpha=3, minimum=1, maximum=2, unit='m/s', "
- "boundary=None)"
- )
- self.priors["speed"] = string_prior
- from_dict = bilby.core.prior.PriorDict(dictionary=self.priors)
- self.assertDictEqual(self.prior_set_from_dict, from_dict)
-
- def test_convert_floats_to_delta_functions(self):
- self.prior_set_from_dict["d"] = 5
- self.prior_set_from_dict["e"] = 7.3
- self.prior_set_from_dict["f"] = "unconvertable"
- self.prior_set_from_dict.convert_floats_to_delta_functions()
- expected = dict(
- mass=bilby.core.prior.Uniform(
- name="a", minimum=0, maximum=1, unit="kg", boundary=None
- ),
- speed=bilby.core.prior.PowerLaw(
- name="b", alpha=3, minimum=1, maximum=2, unit="m/s", boundary=None
- ),
- length=bilby.core.prior.DeltaFunction(name="c", peak=42, unit="m"),
- d=bilby.core.prior.DeltaFunction(peak=5),
- e=bilby.core.prior.DeltaFunction(peak=7.3),
- f="unconvertable",
- )
- self.assertDictEqual(expected, self.prior_set_from_dict)
-
- def test_prior_set_from_dict_but_using_a_string(self):
- prior_set = bilby.core.prior.PriorDict(dictionary=self.default_prior_file)
- expected = bilby.core.prior.PriorDict(
- dict(
- mass_1=bilby.core.prior.Constraint(
- name="mass_1",
- minimum=5,
- maximum=100,
- ),
- mass_2=bilby.core.prior.Constraint(
- name="mass_2",
- minimum=5,
- maximum=100,
- ),
- chirp_mass=bilby.core.prior.Uniform(
- name="chirp_mass",
- minimum=25,
- maximum=100,
- latex_label="$\mathcal{M}$",
- ),
- mass_ratio=bilby.core.prior.Uniform(
- name="mass_ratio",
- minimum=0.125,
- maximum=1,
- latex_label="$q$",
- unit=None,
- ),
- a_1=bilby.core.prior.Uniform(
- name="a_1", minimum=0, maximum=0.99,
- ),
- a_2=bilby.core.prior.Uniform(
- name="a_2", minimum=0, maximum=0.99,
- ),
- tilt_1=bilby.core.prior.Sine(name="tilt_1"),
- tilt_2=bilby.core.prior.Sine(name="tilt_2"),
- phi_12=bilby.core.prior.Uniform(
- name="phi_12", minimum=0, maximum=2 * np.pi, boundary="periodic"
- ),
- phi_jl=bilby.core.prior.Uniform(
- name="phi_jl", minimum=0, maximum=2 * np.pi, boundary="periodic"
- ),
- luminosity_distance=bilby.gw.prior.UniformSourceFrame(
- name="luminosity_distance",
- minimum=1e2,
- maximum=5e3,
- unit="Mpc",
- boundary=None,
- ),
- dec=bilby.core.prior.Cosine(name="dec"),
- ra=bilby.core.prior.Uniform(
- name="ra", minimum=0, maximum=2 * np.pi, boundary="periodic"
- ),
- theta_jn=bilby.core.prior.Sine(name="theta_jn"),
- psi=bilby.core.prior.Uniform(
- name="psi", minimum=0, maximum=np.pi, boundary="periodic"
- ),
- phase=bilby.core.prior.Uniform(
- name="phase", minimum=0, maximum=2 * np.pi, boundary="periodic"
- ),
- )
- )
- all_keys = set(prior_set.keys()).union(set(expected.keys()))
- for key in all_keys:
- self.assertEqual(expected[key], prior_set[key])
-
- def test_dict_argument_is_not_string_or_dict(self):
- with self.assertRaises(ValueError):
- bilby.core.prior.PriorDict(dictionary=list())
-
- def test_sample_subset_correct_size(self):
- size = 7
- samples = self.prior_set_from_dict.sample_subset(
- keys=self.prior_set_from_dict.keys(), size=size
- )
- self.assertEqual(len(self.prior_set_from_dict), len(samples))
- for key in samples:
- self.assertEqual(size, len(samples[key]))
-
- def test_sample_subset_correct_size_when_non_priors_in_dict(self):
- self.prior_set_from_dict["asdf"] = "not_a_prior"
- samples = self.prior_set_from_dict.sample_subset(
- keys=self.prior_set_from_dict.keys()
- )
- self.assertEqual(len(self.prior_set_from_dict) - 1, len(samples))
-
- def test_sample_subset_with_actual_subset(self):
- size = 3
- samples = self.prior_set_from_dict.sample_subset(keys=["length"], size=size)
- expected = dict(length=np.array([42.0, 42.0, 42.0]))
- self.assertTrue(np.array_equal(expected["length"], samples["length"]))
-
- def test_sample_subset_constrained_as_array(self):
- size = 3
- keys = ["mass", "speed"]
- out = self.prior_set_from_dict.sample_subset_constrained_as_array(keys, size)
- self.assertTrue(isinstance(out, np.ndarray))
- self.assertTrue(out.shape == (len(keys), size))
-
- def test_sample(self):
- size = 7
- np.random.seed(42)
- samples1 = self.prior_set_from_dict.sample_subset(
- keys=self.prior_set_from_dict.keys(), size=size
- )
- np.random.seed(42)
- samples2 = self.prior_set_from_dict.sample(size=size)
- self.assertEqual(set(samples1.keys()), set(samples2.keys()))
- for key in samples1:
- self.assertTrue(np.array_equal(samples1[key], samples2[key]))
-
- def test_prob(self):
- samples = self.prior_set_from_dict.sample_subset(keys=["mass", "speed"])
- expected = self.first_prior.prob(samples["mass"]) * self.second_prior.prob(
- samples["speed"]
- )
- self.assertEqual(expected, self.prior_set_from_dict.prob(samples))
-
- def test_ln_prob(self):
- samples = self.prior_set_from_dict.sample_subset(keys=["mass", "speed"])
- expected = self.first_prior.ln_prob(
- samples["mass"]
- ) + self.second_prior.ln_prob(samples["speed"])
- self.assertEqual(expected, self.prior_set_from_dict.ln_prob(samples))
-
- def test_rescale(self):
- theta = [0.5, 0.5, 0.5]
- expected = [
- self.first_prior.rescale(0.5),
- self.second_prior.rescale(0.5),
- self.third_prior.rescale(0.5),
- ]
- self.assertListEqual(
- sorted(expected),
- sorted(
- self.prior_set_from_dict.rescale(
- keys=self.prior_set_from_dict.keys(), theta=theta
- )
- ),
- )
-
- def test_redundancy(self):
- for key in self.prior_set_from_dict.keys():
- self.assertFalse(self.prior_set_from_dict.test_redundancy(key=key))
-
-
class TestConstraintPriorNormalisation(unittest.TestCase):
def setUp(self):
self.priors = dict(
@@ -1223,26 +777,6 @@ class TestConstraintPriorNormalisation(unittest.TestCase):
self.assertAlmostEqual(1, integral, 5)
-class TestLoadPrior(unittest.TestCase):
- def test_load_prior_with_float(self):
- filename = os.path.join(
- os.path.dirname(os.path.realpath(__file__)),
- "prior_files/prior_with_floats.prior",
- )
- prior = bilby.core.prior.PriorDict(filename)
- self.assertTrue("mass_1" in prior)
- self.assertTrue("mass_2" in prior)
- self.assertTrue(prior["mass_2"].peak == 20)
-
- def test_load_prior_with_parentheses(self):
- filename = os.path.join(
- os.path.dirname(os.path.realpath(__file__)),
- "prior_files/prior_with_parentheses.prior",
- )
- prior = bilby.core.prior.PriorDict(filename)
- self.assertTrue(isinstance(prior["logA"], bilby.core.prior.Uniform))
-
-
class TestFillPrior(unittest.TestCase):
def setUp(self):
self.likelihood = Mock()
@@ -1315,489 +849,5 @@ class TestCreateDefaultPrior(unittest.TestCase):
)
-class TestConditionalPrior(unittest.TestCase):
- def setUp(self):
- self.condition_func_call_counter = 0
-
- def condition_func(reference_parameters, test_variable_1, test_variable_2):
- self.condition_func_call_counter += 1
- return {key: value + 1 for key, value in reference_parameters.items()}
-
- self.condition_func = condition_func
- self.minimum = 0
- self.maximum = 5
- self.test_variable_1 = 0
- self.test_variable_2 = 1
- self.prior = bilby.core.prior.ConditionalBasePrior(
- condition_func=condition_func, minimum=self.minimum, maximum=self.maximum
- )
-
- def tearDown(self):
- del self.condition_func
- del self.condition_func_call_counter
- del self.minimum
- del self.maximum
- del self.test_variable_1
- del self.test_variable_2
- del self.prior
-
- def test_reference_params(self):
- self.assertDictEqual(
- dict(minimum=self.minimum, maximum=self.maximum),
- self.prior.reference_params,
- )
-
- def test_required_variables(self):
- self.assertListEqual(
- ["test_variable_1", "test_variable_2"],
- sorted(self.prior.required_variables),
- )
-
- def test_required_variables_no_condition_func(self):
- self.prior = bilby.core.prior.ConditionalBasePrior(
- condition_func=None, minimum=self.minimum, maximum=self.maximum
- )
- self.assertListEqual([], self.prior.required_variables)
-
- def test_get_instantiation_dict(self):
- expected = dict(
- minimum=0,
- maximum=5,
- name=None,
- latex_label=None,
- unit=None,
- boundary=None,
- condition_func=self.condition_func,
- )
- actual = self.prior.get_instantiation_dict()
- for key, value in expected.items():
- if key == "condition_func":
- continue
- self.assertEqual(value, actual[key])
-
- def test_update_conditions_correct_variables(self):
- self.prior.update_conditions(
- test_variable_1=self.test_variable_1, test_variable_2=self.test_variable_2
- )
- self.assertEqual(1, self.condition_func_call_counter)
- self.assertEqual(self.minimum + 1, self.prior.minimum)
- self.assertEqual(self.maximum + 1, self.prior.maximum)
-
- def test_update_conditions_no_variables(self):
- self.prior.update_conditions(
- test_variable_1=self.test_variable_1, test_variable_2=self.test_variable_2
- )
- self.prior.update_conditions()
- self.assertEqual(1, self.condition_func_call_counter)
- self.assertEqual(self.minimum + 1, self.prior.minimum)
- self.assertEqual(self.maximum + 1, self.prior.maximum)
-
- def test_update_conditions_illegal_variables(self):
- with self.assertRaises(bilby.core.prior.IllegalRequiredVariablesException):
- self.prior.update_conditions(test_parameter_1=self.test_variable_1)
-
- def test_sample_calls_update_conditions(self):
- with mock.patch.object(self.prior, "update_conditions") as m:
- self.prior.sample(
- 1,
- test_parameter_1=self.test_variable_1,
- test_parameter_2=self.test_variable_2,
- )
- m.assert_called_with(
- test_parameter_1=self.test_variable_1,
- test_parameter_2=self.test_variable_2,
- )
-
- def test_rescale_calls_update_conditions(self):
- with mock.patch.object(self.prior, "update_conditions") as m:
- self.prior.rescale(
- 1,
- test_parameter_1=self.test_variable_1,
- test_parameter_2=self.test_variable_2,
- )
- m.assert_called_with(
- test_parameter_1=self.test_variable_1,
- test_parameter_2=self.test_variable_2,
- )
-
- def test_rescale_prob_update_conditions(self):
- with mock.patch.object(self.prior, "update_conditions") as m:
- self.prior.prob(
- 1,
- test_parameter_1=self.test_variable_1,
- test_parameter_2=self.test_variable_2,
- )
- m.assert_called_with(
- test_parameter_1=self.test_variable_1,
- test_parameter_2=self.test_variable_2,
- )
-
- def test_rescale_ln_prob_update_conditions(self):
- with mock.patch.object(self.prior, "update_conditions") as m:
- self.prior.ln_prob(
- 1,
- test_parameter_1=self.test_variable_1,
- test_parameter_2=self.test_variable_2,
- )
- calls = [
- mock.call(
- test_parameter_1=self.test_variable_1,
- test_parameter_2=self.test_variable_2,
- ),
- mock.call(),
- ]
- m.assert_has_calls(calls)
-
- def test_reset_to_reference_parameters(self):
- self.prior.minimum = 10
- self.prior.maximum = 20
- self.prior.reset_to_reference_parameters()
- self.assertEqual(self.prior.reference_params["minimum"], self.prior.minimum)
- self.assertEqual(self.prior.reference_params["maximum"], self.prior.maximum)
-
- def test_cond_prior_instantiation_no_boundary_prior(self):
- prior = bilby.core.prior.ConditionalFermiDirac(
- condition_func=None, sigma=1, mu=1
- )
- self.assertIsNone(prior.boundary)
-
-
-class TestConditionalPriorDict(unittest.TestCase):
- def setUp(self):
- def condition_func_1(reference_parameters, var_0):
- return reference_parameters
-
- def condition_func_2(reference_parameters, var_0, var_1):
- return reference_parameters
-
- def condition_func_3(reference_parameters, var_1, var_2):
- return reference_parameters
-
- self.minimum = 0
- self.maximum = 1
- self.prior_0 = bilby.core.prior.Uniform(
- minimum=self.minimum, maximum=self.maximum
- )
- self.prior_1 = bilby.core.prior.ConditionalUniform(
- condition_func=condition_func_1, minimum=self.minimum, maximum=self.maximum
- )
- self.prior_2 = bilby.core.prior.ConditionalUniform(
- condition_func=condition_func_2, minimum=self.minimum, maximum=self.maximum
- )
- self.prior_3 = bilby.core.prior.ConditionalUniform(
- condition_func=condition_func_3, minimum=self.minimum, maximum=self.maximum
- )
- self.conditional_priors = bilby.core.prior.ConditionalPriorDict(
- dict(
- var_3=self.prior_3,
- var_2=self.prior_2,
- var_0=self.prior_0,
- var_1=self.prior_1,
- )
- )
- self.conditional_priors_manually_set_items = (
- bilby.core.prior.ConditionalPriorDict()
- )
- self.test_sample = dict(var_0=0.3, var_1=0.4, var_2=0.5, var_3=0.4)
- for key, value in dict(
- var_0=self.prior_0,
- var_1=self.prior_1,
- var_2=self.prior_2,
- var_3=self.prior_3,
- ).items():
- self.conditional_priors_manually_set_items[key] = value
-
- def tearDown(self):
- del self.minimum
- del self.maximum
- del self.prior_0
- del self.prior_1
- del self.prior_2
- del self.prior_3
- del self.conditional_priors
- del self.conditional_priors_manually_set_items
- del self.test_sample
-
- def test_conditions_resolved_upon_instantiation(self):
- self.assertListEqual(
- ["var_0", "var_1", "var_2", "var_3"], self.conditional_priors.sorted_keys
- )
-
- def test_conditions_resolved_setting_items(self):
- self.assertListEqual(
- ["var_0", "var_1", "var_2", "var_3"],
- self.conditional_priors_manually_set_items.sorted_keys,
- )
-
- def test_unconditional_keys_upon_instantiation(self):
- self.assertListEqual(["var_0"], self.conditional_priors.unconditional_keys)
-
- def test_unconditional_keys_setting_items(self):
- self.assertListEqual(
- ["var_0"], self.conditional_priors_manually_set_items.unconditional_keys
- )
-
- def test_conditional_keys_upon_instantiation(self):
- self.assertListEqual(
- ["var_1", "var_2", "var_3"], self.conditional_priors.conditional_keys
- )
-
- def test_conditional_keys_setting_items(self):
- self.assertListEqual(
- ["var_1", "var_2", "var_3"],
- self.conditional_priors_manually_set_items.conditional_keys,
- )
-
- def test_prob(self):
- self.assertEqual(1, self.conditional_priors.prob(sample=self.test_sample))
-
- def test_prob_illegal_conditions(self):
- del self.conditional_priors["var_0"]
- with self.assertRaises(bilby.core.prior.IllegalConditionsException):
- self.conditional_priors.prob(sample=self.test_sample)
-
- def test_ln_prob(self):
- self.assertEqual(0, self.conditional_priors.ln_prob(sample=self.test_sample))
-
- def test_ln_prob_illegal_conditions(self):
- del self.conditional_priors["var_0"]
- with self.assertRaises(bilby.core.prior.IllegalConditionsException):
- self.conditional_priors.ln_prob(sample=self.test_sample)
-
- def test_sample_subset_all_keys(self):
- with mock.patch("numpy.random.uniform") as m:
- m.return_value = 0.5
- self.assertDictEqual(
- dict(var_0=0.5, var_1=0.5, var_2=0.5, var_3=0.5),
- self.conditional_priors.sample_subset(
- keys=["var_0", "var_1", "var_2", "var_3"]
- ),
- )
-
- def test_sample_illegal_subset(self):
- with mock.patch("numpy.random.uniform") as m:
- m.return_value = 0.5
- with self.assertRaises(bilby.core.prior.IllegalConditionsException):
- self.conditional_priors.sample_subset(keys=["var_1"])
-
- def test_sample_multiple(self):
- def condition_func(reference_params, a):
- return dict(
- minimum=reference_params["minimum"],
- maximum=reference_params["maximum"],
- alpha=reference_params["alpha"] * a,
- )
-
- priors = bilby.core.prior.ConditionalPriorDict()
- priors["a"] = bilby.core.prior.Uniform(minimum=0, maximum=1)
- priors["b"] = bilby.core.prior.ConditionalPowerLaw(
- condition_func=condition_func, minimum=1, maximum=2, alpha=-2
- )
- print(priors.sample(2))
-
- def test_rescale(self):
- def condition_func_1_rescale(reference_parameters, var_0):
- if var_0 == 0.5:
- return dict(minimum=reference_parameters["minimum"], maximum=1)
- return reference_parameters
-
- def condition_func_2_rescale(reference_parameters, var_0, var_1):
- if var_0 == 0.5 and var_1 == 0.5:
- return dict(minimum=reference_parameters["minimum"], maximum=1)
- return reference_parameters
-
- def condition_func_3_rescale(reference_parameters, var_1, var_2):
- if var_1 == 0.5 and var_2 == 0.5:
- return dict(minimum=reference_parameters["minimum"], maximum=1)
- return reference_parameters
-
- self.prior_0 = bilby.core.prior.Uniform(minimum=self.minimum, maximum=1)
- self.prior_1 = bilby.core.prior.ConditionalUniform(
- condition_func=condition_func_1_rescale, minimum=self.minimum, maximum=2
- )
- self.prior_2 = bilby.core.prior.ConditionalUniform(
- condition_func=condition_func_2_rescale, minimum=self.minimum, maximum=2
- )
- self.prior_3 = bilby.core.prior.ConditionalUniform(
- condition_func=condition_func_3_rescale, minimum=self.minimum, maximum=2
- )
- self.conditional_priors = bilby.core.prior.ConditionalPriorDict(
- dict(
- var_3=self.prior_3,
- var_2=self.prior_2,
- var_0=self.prior_0,
- var_1=self.prior_1,
- )
- )
- ref_variables = [0.5, 0.5, 0.5, 0.5]
- res = self.conditional_priors.rescale(
- keys=list(self.test_sample.keys()), theta=ref_variables
- )
- self.assertListEqual(ref_variables, res)
-
- def test_rescale_illegal_conditions(self):
- del self.conditional_priors["var_0"]
- with self.assertRaises(bilby.core.prior.IllegalConditionsException):
- self.conditional_priors.rescale(
- keys=list(self.test_sample.keys()),
- theta=list(self.test_sample.values()),
- )
-
- def test_combined_conditions(self):
- def d_condition_func(reference_params, a, b, c):
- return dict(
- minimum=reference_params["minimum"], maximum=reference_params["maximum"]
- )
-
- def a_condition_func(reference_params, b, c):
- return dict(
- minimum=reference_params["minimum"], maximum=reference_params["maximum"]
- )
-
- priors = bilby.core.prior.ConditionalPriorDict()
-
- priors["a"] = bilby.core.prior.ConditionalUniform(
- condition_func=a_condition_func, minimum=0, maximum=1
- )
-
- priors["b"] = bilby.core.prior.LogUniform(minimum=1, maximum=10)
-
- priors["d"] = bilby.core.prior.ConditionalUniform(
- condition_func=d_condition_func, minimum=0.0, maximum=1.0
- )
-
- priors["c"] = bilby.core.prior.LogUniform(minimum=1, maximum=10)
- priors.sample()
- res = priors.rescale(["a", "b", "d", "c"], [0.5, 0.5, 0.5, 0.5])
- print(res)
-
-
-class TestJsonIO(unittest.TestCase):
- def setUp(self):
- mvg = bilby.core.prior.MultivariateGaussianDist(
- names=["testa", "testb"],
- mus=[1, 1],
- covs=np.array([[2.0, 0.5], [0.5, 2.0]]),
- weights=1.0,
- )
- mvn = bilby.core.prior.MultivariateGaussianDist(
- names=["testa", "testb"],
- mus=[1, 1],
- covs=np.array([[2.0, 0.5], [0.5, 2.0]]),
- weights=1.0,
- )
- hp_map_file = os.path.join(
- os.path.dirname(os.path.realpath(__file__)),
- "prior_files/GW150914_testing_skymap.fits",
- )
- hp_dist = bilby.gw.prior.HealPixMapPriorDist(
- hp_map_file, names=["testra", "testdec"]
- )
- hp_3d_dist = bilby.gw.prior.HealPixMapPriorDist(
- hp_map_file, names=["testra", "testdec", "testdistance"], distance=True
- )
-
- self.priors = bilby.core.prior.PriorDict(
- dict(
- aa=bilby.core.prior.DeltaFunction(name="test", unit="unit", peak=1),
- bb=bilby.core.prior.Gaussian(name="test", unit="unit", mu=0, sigma=1),
- cc=bilby.core.prior.Normal(name="test", unit="unit", mu=0, sigma=1),
- dd=bilby.core.prior.PowerLaw(
- name="test", unit="unit", alpha=0, minimum=0, maximum=1
- ),
- ee=bilby.core.prior.PowerLaw(
- name="test", unit="unit", alpha=-1, minimum=0.5, maximum=1
- ),
- ff=bilby.core.prior.PowerLaw(
- name="test", unit="unit", alpha=2, minimum=1, maximum=1e2
- ),
- gg=bilby.core.prior.Uniform(
- name="test", unit="unit", minimum=0, maximum=1
- ),
- hh=bilby.core.prior.LogUniform(
- name="test", unit="unit", minimum=5e0, maximum=1e2
- ),
- ii=bilby.gw.prior.UniformComovingVolume(
- name="redshift", minimum=0.1, maximum=1.0
- ),
- jj=bilby.gw.prior.UniformSourceFrame(
- name="luminosity_distance", minimum=1.0, maximum=1000.0
- ),
- kk=bilby.core.prior.Sine(name="test", unit="unit"),
- ll=bilby.core.prior.Cosine(name="test", unit="unit"),
- m=bilby.core.prior.Interped(
- name="test",
- unit="unit",
- xx=np.linspace(0, 10, 1000),
- yy=np.linspace(0, 10, 1000) ** 4,
- minimum=3,
- maximum=5,
- ),
- nn=bilby.core.prior.TruncatedGaussian(
- name="test", unit="unit", mu=1, sigma=0.4, minimum=-1, maximum=1
- ),
- oo=bilby.core.prior.TruncatedNormal(
- name="test", unit="unit", mu=1, sigma=0.4, minimum=-1, maximum=1
- ),
- pp=bilby.core.prior.HalfGaussian(name="test", unit="unit", sigma=1),
- qq=bilby.core.prior.HalfNormal(name="test", unit="unit", sigma=1),
- rr=bilby.core.prior.LogGaussian(name="test", unit="unit", mu=0, sigma=1),
- ss=bilby.core.prior.LogNormal(name="test", unit="unit", mu=0, sigma=1),
- tt=bilby.core.prior.Exponential(name="test", unit="unit", mu=1),
- uu=bilby.core.prior.StudentT(
- name="test", unit="unit", df=3, mu=0, scale=1
- ),
- vv=bilby.core.prior.Beta(name="test", unit="unit", alpha=2.0, beta=2.0),
- xx=bilby.core.prior.Logistic(name="test", unit="unit", mu=0, scale=1),
- yy=bilby.core.prior.Cauchy(name="test", unit="unit", alpha=0, beta=1),
- zz=bilby.core.prior.Lorentzian(
- name="test", unit="unit", alpha=0, beta=1
- ),
- a_=bilby.core.prior.Gamma(name="test", unit="unit", k=1, theta=1),
- ab=bilby.core.prior.ChiSquared(name="test", unit="unit", nu=2),
- ac=bilby.gw.prior.AlignedSpin(name="test", unit="unit"),
- ad=bilby.core.prior.MultivariateGaussian(
- dist=mvg, name="testa", unit="unit"
- ),
- ae=bilby.core.prior.MultivariateGaussian(
- dist=mvg, name="testb", unit="unit"
- ),
- af=bilby.core.prior.MultivariateNormal(
- dist=mvn, name="testa", unit="unit"
- ),
- ag=bilby.core.prior.MultivariateNormal(
- dist=mvn, name="testb", unit="unit"
- ),
- ah=bilby.gw.prior.HealPixPrior(
- dist=hp_dist, name="testra", unit="unit"
- ),
- ai=bilby.gw.prior.HealPixPrior(
- dist=hp_dist, name="testdec", unit="unit"
- ),
- aj=bilby.gw.prior.HealPixPrior(
- dist=hp_3d_dist, name="testra", unit="unit"
- ),
- ak=bilby.gw.prior.HealPixPrior(
- dist=hp_3d_dist, name="testdec", unit="unit"
- ),
- al=bilby.gw.prior.HealPixPrior(
- dist=hp_3d_dist, name="testdistance", unit="unit"
- ),
- )
- )
-
- def test_read_write_to_json(self):
- """ Interped prior is removed as there is numerical error in the recovered prior."""
- self.priors.to_json(outdir="prior_files", label="json_test")
- new_priors = bilby.core.prior.PriorDict.from_json(
- filename="prior_files/json_test_prior.json"
- )
- old_interped = self.priors.pop("m")
- new_interped = new_priors.pop("m")
- self.assertDictEqual(self.priors, new_priors)
- self.assertLess(max(abs(old_interped.xx - new_interped.xx)), 1e-15)
- self.assertLess(max(abs(old_interped.yy - new_interped.yy)), 1e-15)
-
-
if __name__ == "__main__":
unittest.main()
diff --git a/test/result_test.py b/test/core/result_test.py
similarity index 100%
rename from test/result_test.py
rename to test/core/result_test.py
diff --git a/test/core/sampler/__init__.py b/test/core/sampler/__init__.py
new file mode 100644
index 0000000000000000000000000000000000000000..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391
diff --git a/test/core/sampler/base_sampler_test.py b/test/core/sampler/base_sampler_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..af3f6b749fc37f8bf22e944727dc0adc2da80868
--- /dev/null
+++ b/test/core/sampler/base_sampler_test.py
@@ -0,0 +1,103 @@
+import copy
+import os
+import unittest
+
+import numpy as np
+from mock import MagicMock
+
+import bilby
+from bilby.core import prior
+
+
+class TestSampler(unittest.TestCase):
+ def setUp(self):
+ likelihood = bilby.core.likelihood.Likelihood()
+ likelihood.parameters = dict(a=1, b=2, c=3)
+ delta_prior = prior.DeltaFunction(peak=0)
+ delta_prior.rescale = MagicMock(return_value=prior.DeltaFunction(peak=1))
+ delta_prior.prob = MagicMock(return_value=1)
+ delta_prior.sample = MagicMock(return_value=0)
+ uniform_prior = prior.Uniform(0, 1)
+ uniform_prior.rescale = MagicMock(return_value=prior.Uniform(0, 2))
+ uniform_prior.prob = MagicMock(return_value=1)
+ uniform_prior.sample = MagicMock(return_value=0.5)
+
+ priors = dict(a=delta_prior, b="string", c=uniform_prior)
+ likelihood.log_likelihood_ratio = MagicMock(return_value=1)
+ likelihood.log_likelihood = MagicMock(return_value=2)
+ test_directory = "test_directory"
+ if os.path.isdir(test_directory):
+ os.rmdir(test_directory)
+ self.sampler = bilby.core.sampler.Sampler(
+ likelihood=likelihood,
+ priors=priors,
+ outdir=test_directory,
+ use_ratio=False,
+ skip_import_verification=True,
+ )
+
+ def tearDown(self):
+ del self.sampler
+
+ def test_search_parameter_keys(self):
+ expected_search_parameter_keys = ["c"]
+ self.assertListEqual(
+ self.sampler.search_parameter_keys, expected_search_parameter_keys
+ )
+
+ def test_fixed_parameter_keys(self):
+ expected_fixed_parameter_keys = ["a"]
+ self.assertListEqual(
+ self.sampler.fixed_parameter_keys, expected_fixed_parameter_keys
+ )
+
+ def test_ndim(self):
+ self.assertEqual(self.sampler.ndim, 1)
+
+ def test_kwargs(self):
+ self.assertDictEqual(self.sampler.kwargs, {})
+
+ def test_label(self):
+ self.assertEqual(self.sampler.label, "label")
+
+ def test_prior_transform_transforms_search_parameter_keys(self):
+ self.sampler.prior_transform([0])
+ expected_prior = prior.Uniform(0, 1)
+ self.assertListEqual(
+ [self.sampler.priors["c"].minimum, self.sampler.priors["c"].maximum],
+ [expected_prior.minimum, expected_prior.maximum],
+ )
+
+ def test_prior_transform_does_not_transform_fixed_parameter_keys(self):
+ self.sampler.prior_transform([0])
+ self.assertEqual(
+ self.sampler.priors["a"].peak, prior.DeltaFunction(peak=0).peak
+ )
+
+ def test_log_prior(self):
+ self.assertEqual(self.sampler.log_prior({1}), 0.0)
+
+ def test_log_likelihood_with_use_ratio(self):
+ self.sampler.use_ratio = True
+ self.assertEqual(self.sampler.log_likelihood([0]), 1)
+
+ def test_log_likelihood_without_use_ratio(self):
+ self.sampler.use_ratio = False
+ self.assertEqual(self.sampler.log_likelihood([0]), 2)
+
+ def test_log_likelihood_correctly_sets_parameters(self):
+ expected_dict = dict(a=0, b=2, c=0)
+ _ = self.sampler.log_likelihood([0])
+ self.assertDictEqual(self.sampler.likelihood.parameters, expected_dict)
+
+ def test_get_random_draw(self):
+ self.assertEqual(self.sampler.get_random_draw_from_prior(), np.array([0.5]))
+
+ def test_base_run_sampler(self):
+ sampler_copy = copy.copy(self.sampler)
+ self.sampler.run_sampler()
+ self.assertDictEqual(sampler_copy.__dict__, self.sampler.__dict__)
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/core/sampler/cpnest_test.py b/test/core/sampler/cpnest_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..569e00c0365153795d515e360284e15fa573858a
--- /dev/null
+++ b/test/core/sampler/cpnest_test.py
@@ -0,0 +1,68 @@
+import unittest
+
+from mock import MagicMock
+
+import bilby
+
+
+class TestCPNest(unittest.TestCase):
+ def setUp(self):
+ self.likelihood = MagicMock()
+ self.priors = bilby.core.prior.PriorDict(
+ dict(a=bilby.core.prior.Uniform(0, 1), b=bilby.core.prior.Uniform(0, 1))
+ )
+ self.sampler = bilby.core.sampler.Cpnest(
+ self.likelihood,
+ self.priors,
+ outdir="outdir",
+ label="label",
+ use_ratio=False,
+ plot=False,
+ skip_import_verification=True,
+ )
+
+ def tearDown(self):
+ del self.likelihood
+ del self.priors
+ del self.sampler
+
+ def test_default_kwargs(self):
+ expected = dict(
+ verbose=3,
+ nthreads=1,
+ nlive=500,
+ maxmcmc=1000,
+ seed=None,
+ poolsize=100,
+ nhamiltonian=0,
+ resume=True,
+ output="outdir/cpnest_label/",
+ proposals=None,
+ n_periodic_checkpoint=8000,
+ )
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+ def test_translate_kwargs(self):
+ expected = dict(
+ verbose=3,
+ nthreads=1,
+ nlive=250,
+ maxmcmc=1000,
+ seed=None,
+ poolsize=100,
+ nhamiltonian=0,
+ resume=True,
+ output="outdir/cpnest_label/",
+ proposals=None,
+ n_periodic_checkpoint=8000,
+ )
+ for equiv in bilby.core.sampler.base_sampler.NestedSampler.npoints_equiv_kwargs:
+ new_kwargs = self.sampler.kwargs.copy()
+ del new_kwargs["nlive"]
+ new_kwargs[equiv] = 250
+ self.sampler.kwargs = new_kwargs
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/core/sampler/dynamic_dynesty_test.py b/test/core/sampler/dynamic_dynesty_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..9b4a926f802e562fb325c5744d9437ef8ea8fae8
--- /dev/null
+++ b/test/core/sampler/dynamic_dynesty_test.py
@@ -0,0 +1,5 @@
+import unittest
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/core/sampler/dynesty_test.py b/test/core/sampler/dynesty_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..0509ff51067cff2ab8f608924a6f0783460b6f96
--- /dev/null
+++ b/test/core/sampler/dynesty_test.py
@@ -0,0 +1,159 @@
+import unittest
+
+import numpy as np
+from mock import MagicMock
+
+import bilby
+
+
+class TestDynesty(unittest.TestCase):
+ def setUp(self):
+ self.likelihood = MagicMock()
+ self.priors = bilby.core.prior.PriorDict(
+ dict(a=bilby.core.prior.Uniform(0, 1), b=bilby.core.prior.Uniform(0, 1))
+ )
+ self.sampler = bilby.core.sampler.Dynesty(
+ self.likelihood,
+ self.priors,
+ outdir="outdir",
+ label="label",
+ use_ratio=False,
+ plot=False,
+ skip_import_verification=True,
+ )
+
+ def tearDown(self):
+ del self.likelihood
+ del self.priors
+ del self.sampler
+
+ def test_default_kwargs(self):
+ expected = dict(
+ bound="multi",
+ sample="rwalk",
+ periodic=None,
+ reflective=None,
+ verbose=True,
+ check_point_delta_t=600,
+ nlive=1000,
+ first_update=None,
+ npdim=None,
+ rstate=None,
+ queue_size=1,
+ pool=None,
+ use_pool=None,
+ live_points=None,
+ logl_args=None,
+ logl_kwargs=None,
+ ptform_args=None,
+ ptform_kwargs=None,
+ enlarge=1.5,
+ bootstrap=None,
+ vol_dec=0.5,
+ vol_check=8.0,
+ facc=0.2,
+ slices=5,
+ dlogz=0.1,
+ maxiter=None,
+ maxcall=None,
+ logl_max=np.inf,
+ add_live=True,
+ print_progress=True,
+ save_bounds=False,
+ walks=100,
+ update_interval=600,
+ print_func="func",
+ n_effective=None,
+ maxmcmc=5000,
+ nact=5,
+ )
+ self.sampler.kwargs[
+ "print_func"
+ ] = "func" # set this manually as this is not testable otherwise
+ # DictEqual can't handle lists so we check these separately
+ self.assertEqual([], self.sampler.kwargs["periodic"])
+ self.assertEqual([], self.sampler.kwargs["reflective"])
+ self.sampler.kwargs["periodic"] = expected["periodic"]
+ self.sampler.kwargs["reflective"] = expected["reflective"]
+ for key in self.sampler.kwargs.keys():
+ print(
+ "key={}, expected={}, actual={}".format(
+ key, expected[key], self.sampler.kwargs[key]
+ )
+ )
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+ def test_translate_kwargs(self):
+ expected = dict(
+ bound="multi",
+ sample="rwalk",
+ periodic=[],
+ reflective=[],
+ verbose=True,
+ check_point_delta_t=600,
+ nlive=1000,
+ first_update=None,
+ npdim=None,
+ rstate=None,
+ queue_size=1,
+ pool=None,
+ use_pool=None,
+ live_points=None,
+ logl_args=None,
+ logl_kwargs=None,
+ ptform_args=None,
+ ptform_kwargs=None,
+ enlarge=1.5,
+ bootstrap=None,
+ vol_dec=0.5,
+ vol_check=8.0,
+ facc=0.2,
+ slices=5,
+ dlogz=0.1,
+ maxiter=None,
+ maxcall=None,
+ logl_max=np.inf,
+ add_live=True,
+ print_progress=True,
+ save_bounds=False,
+ walks=100,
+ update_interval=600,
+ print_func="func",
+ n_effective=None,
+ maxmcmc=5000,
+ nact=5,
+ )
+
+ for equiv in bilby.core.sampler.base_sampler.NestedSampler.npoints_equiv_kwargs:
+ new_kwargs = self.sampler.kwargs.copy()
+ del new_kwargs["nlive"]
+ new_kwargs[equiv] = 1000
+ self.sampler.kwargs = new_kwargs
+ self.sampler.kwargs[
+ "print_func"
+ ] = "func" # set this manually as this is not testable otherwise
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+ def test_prior_boundary(self):
+ self.priors["a"] = bilby.core.prior.Prior(boundary="periodic")
+ self.priors["b"] = bilby.core.prior.Prior(boundary="reflective")
+ self.priors["c"] = bilby.core.prior.Prior(boundary=None)
+ self.priors["d"] = bilby.core.prior.Prior(boundary="reflective")
+ self.priors["e"] = bilby.core.prior.Prior(boundary="periodic")
+ self.sampler = bilby.core.sampler.Dynesty(
+ self.likelihood,
+ self.priors,
+ outdir="outdir",
+ label="label",
+ use_ratio=False,
+ plot=False,
+ skip_import_verification=True,
+ )
+ self.assertEqual([0, 4], self.sampler.kwargs["periodic"])
+ self.assertEqual(self.sampler._periodic, self.sampler.kwargs["periodic"])
+ self.assertEqual([1, 3], self.sampler.kwargs["reflective"])
+ self.assertEqual(self.sampler._reflective, self.sampler.kwargs["reflective"])
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/core/sampler/emcee_test.py b/test/core/sampler/emcee_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..9a81d073f8c0e1086e43e0e50e55e4423e6fce49
--- /dev/null
+++ b/test/core/sampler/emcee_test.py
@@ -0,0 +1,76 @@
+import unittest
+
+from mock import MagicMock
+
+import bilby
+
+
+class TestEmcee(unittest.TestCase):
+ def setUp(self):
+ self.likelihood = MagicMock()
+ self.priors = bilby.core.prior.PriorDict(
+ dict(a=bilby.core.prior.Uniform(0, 1), b=bilby.core.prior.Uniform(0, 1))
+ )
+ self.sampler = bilby.core.sampler.Emcee(
+ self.likelihood,
+ self.priors,
+ outdir="outdir",
+ label="label",
+ use_ratio=False,
+ plot=False,
+ skip_import_verification=True,
+ )
+
+ def tearDown(self):
+ del self.likelihood
+ del self.priors
+ del self.sampler
+
+ def test_default_kwargs(self):
+ expected = dict(
+ nwalkers=500,
+ a=2,
+ args=[],
+ kwargs={},
+ postargs=None,
+ pool=None,
+ live_dangerously=False,
+ runtime_sortingfn=None,
+ lnprob0=None,
+ rstate0=None,
+ blobs0=None,
+ iterations=100,
+ thin=1,
+ storechain=True,
+ mh_proposal=None,
+ )
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+ def test_translate_kwargs(self):
+ expected = dict(
+ nwalkers=100,
+ a=2,
+ args=[],
+ kwargs={},
+ postargs=None,
+ pool=None,
+ live_dangerously=False,
+ runtime_sortingfn=None,
+ lnprob0=None,
+ rstate0=None,
+ blobs0=None,
+ iterations=100,
+ thin=1,
+ storechain=True,
+ mh_proposal=None,
+ )
+ for equiv in bilby.core.sampler.base_sampler.MCMCSampler.nwalkers_equiv_kwargs:
+ new_kwargs = self.sampler.kwargs.copy()
+ del new_kwargs["nwalkers"]
+ new_kwargs[equiv] = 100
+ self.sampler.kwargs = new_kwargs
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/core/sampler/fake_sampler_test.py b/test/core/sampler/fake_sampler_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..9b4a926f802e562fb325c5744d9437ef8ea8fae8
--- /dev/null
+++ b/test/core/sampler/fake_sampler_test.py
@@ -0,0 +1,5 @@
+import unittest
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/core/sampler/kombine_test.py b/test/core/sampler/kombine_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..f4bdc80303f474c223ffae513fb5f4b05ff46dfe
--- /dev/null
+++ b/test/core/sampler/kombine_test.py
@@ -0,0 +1,82 @@
+import unittest
+
+from mock import MagicMock
+
+import bilby
+
+
+class TestKombine(unittest.TestCase):
+ def setUp(self):
+ self.likelihood = MagicMock()
+ self.priors = bilby.core.prior.PriorDict(
+ dict(a=bilby.core.prior.Uniform(0, 1), b=bilby.core.prior.Uniform(0, 1))
+ )
+ self.sampler = bilby.core.sampler.Kombine(
+ self.likelihood,
+ self.priors,
+ outdir="outdir",
+ label="label",
+ use_ratio=False,
+ plot=False,
+ skip_import_verification=True,
+ )
+
+ def tearDown(self):
+ del self.likelihood
+ del self.priors
+ del self.sampler
+
+ def test_default_kwargs(self):
+ expected = dict(
+ nwalkers=500,
+ args=[],
+ pool=None,
+ transd=False,
+ lnpost0=None,
+ blob0=None,
+ iterations=500,
+ storechain=True,
+ processes=1,
+ update_interval=None,
+ kde=None,
+ kde_size=None,
+ spaces=None,
+ freeze_transd=False,
+ test_steps=16,
+ critical_pval=0.05,
+ max_steps=None,
+ burnin_verbose=False,
+ )
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+ def test_translate_kwargs(self):
+ expected = dict(
+ nwalkers=400,
+ args=[],
+ pool=None,
+ transd=False,
+ lnpost0=None,
+ blob0=None,
+ iterations=500,
+ storechain=True,
+ processes=1,
+ update_interval=None,
+ kde=None,
+ kde_size=None,
+ spaces=None,
+ freeze_transd=False,
+ test_steps=16,
+ critical_pval=0.05,
+ max_steps=None,
+ burnin_verbose=False,
+ )
+ for equiv in bilby.core.sampler.base_sampler.MCMCSampler.nwalkers_equiv_kwargs:
+ new_kwargs = self.sampler.kwargs.copy()
+ del new_kwargs["nwalkers"]
+ new_kwargs[equiv] = 400
+ self.sampler.kwargs = new_kwargs
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/core/sampler/nestle_test.py b/test/core/sampler/nestle_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..5be3ac8d8076d9e1704c358123ca44183155fa92
--- /dev/null
+++ b/test/core/sampler/nestle_test.py
@@ -0,0 +1,74 @@
+import unittest
+
+from mock import MagicMock
+
+import bilby
+
+
+class TestNestle(unittest.TestCase):
+ def setUp(self):
+ self.likelihood = MagicMock()
+ self.priors = bilby.core.prior.PriorDict(
+ dict(a=bilby.core.prior.Uniform(0, 1), b=bilby.core.prior.Uniform(0, 1))
+ )
+ self.sampler = bilby.core.sampler.Nestle(
+ self.likelihood,
+ self.priors,
+ outdir="outdir",
+ label="label",
+ use_ratio=False,
+ plot=False,
+ skip_import_verification=True,
+ verbose=False,
+ )
+
+ def tearDown(self):
+ del self.likelihood
+ del self.priors
+ del self.sampler
+
+ def test_default_kwargs(self):
+ expected = dict(
+ verbose=False,
+ method="multi",
+ npoints=500,
+ update_interval=None,
+ npdim=None,
+ maxiter=None,
+ maxcall=None,
+ dlogz=None,
+ decline_factor=None,
+ rstate=None,
+ callback=None,
+ steps=20,
+ enlarge=1.2,
+ )
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+ def test_translate_kwargs(self):
+ expected = dict(
+ verbose=False,
+ method="multi",
+ npoints=345,
+ update_interval=None,
+ npdim=None,
+ maxiter=None,
+ maxcall=None,
+ dlogz=None,
+ decline_factor=None,
+ rstate=None,
+ callback=None,
+ steps=20,
+ enlarge=1.2,
+ )
+ self.sampler.kwargs["npoints"] = 123
+ for equiv in bilby.core.sampler.base_sampler.NestedSampler.npoints_equiv_kwargs:
+ new_kwargs = self.sampler.kwargs.copy()
+ del new_kwargs["npoints"]
+ new_kwargs[equiv] = 345
+ self.sampler.kwargs = new_kwargs
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/core/sampler/polychord_test.py b/test/core/sampler/polychord_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..8427315ac49c3faeed40996463b678f7a530e885
--- /dev/null
+++ b/test/core/sampler/polychord_test.py
@@ -0,0 +1,103 @@
+import unittest
+
+import numpy as np
+from mock import MagicMock
+
+import bilby
+
+
+class TestPolyChord(unittest.TestCase):
+ def setUp(self):
+ self.likelihood = MagicMock()
+ self.priors = bilby.core.prior.PriorDict(
+ dict(a=bilby.core.prior.Uniform(0, 1), b=bilby.core.prior.Uniform(0, 1))
+ )
+ self.sampler = bilby.core.sampler.PyPolyChord(
+ self.likelihood,
+ self.priors,
+ outdir="outdir",
+ label="polychord",
+ use_ratio=False,
+ plot=False,
+ skip_import_verification=True,
+ )
+
+ def tearDown(self):
+ del self.likelihood
+ del self.priors
+ del self.sampler
+
+ def test_default_kwargs(self):
+ expected = dict(
+ use_polychord_defaults=False,
+ nlive=self.sampler.ndim * 25,
+ num_repeats=self.sampler.ndim * 5,
+ nprior=-1,
+ do_clustering=True,
+ feedback=1,
+ precision_criterion=0.001,
+ logzero=-1e30,
+ max_ndead=-1,
+ boost_posterior=0.0,
+ posteriors=True,
+ equals=True,
+ cluster_posteriors=True,
+ write_resume=True,
+ write_paramnames=False,
+ read_resume=True,
+ write_stats=True,
+ write_live=True,
+ write_dead=True,
+ write_prior=True,
+ compression_factor=np.exp(-1),
+ base_dir="outdir",
+ file_root="polychord",
+ seed=-1,
+ grade_dims=list([self.sampler.ndim]),
+ grade_frac=list([1.0] * len([self.sampler.ndim])),
+ nlives={},
+ )
+ self.sampler._setup_dynamic_defaults()
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+ def test_translate_kwargs(self):
+ expected = dict(
+ use_polychord_defaults=False,
+ nlive=123,
+ num_repeats=self.sampler.ndim * 5,
+ nprior=-1,
+ do_clustering=True,
+ feedback=1,
+ precision_criterion=0.001,
+ logzero=-1e30,
+ max_ndead=-1,
+ boost_posterior=0.0,
+ posteriors=True,
+ equals=True,
+ cluster_posteriors=True,
+ write_resume=True,
+ write_paramnames=False,
+ read_resume=True,
+ write_stats=True,
+ write_live=True,
+ write_dead=True,
+ write_prior=True,
+ compression_factor=np.exp(-1),
+ base_dir="outdir",
+ file_root="polychord",
+ seed=-1,
+ grade_dims=list([self.sampler.ndim]),
+ grade_frac=list([1.0] * len([self.sampler.ndim])),
+ nlives={},
+ )
+ self.sampler._setup_dynamic_defaults()
+ for equiv in bilby.core.sampler.base_sampler.NestedSampler.npoints_equiv_kwargs:
+ new_kwargs = self.sampler.kwargs.copy()
+ del new_kwargs["nlive"]
+ new_kwargs[equiv] = 123
+ self.sampler.kwargs = new_kwargs
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/proposal_test.py b/test/core/sampler/proposal_test.py
similarity index 78%
rename from test/proposal_test.py
rename to test/core/sampler/proposal_test.py
index 8af0df18511ff6d3b3d46c3da7d441f95468607b..6b1f5b7747cb6d2df0cce4b03dbf8f0d94afde63 100644
--- a/test/proposal_test.py
+++ b/test/core/sampler/proposal_test.py
@@ -4,7 +4,6 @@ import random
import numpy as np
-import bilby.gw.sampler.proposal
from bilby.core import prior
from bilby.core.sampler import proposal
@@ -409,121 +408,5 @@ class TestEnsembleEigenVector(unittest.TestCase):
self.assertAlmostEqual(expected[key], value)
-class TestSkyLocationWanderJump(unittest.TestCase):
- def setUp(self):
- self.priors = prior.PriorDict(
- dict(
- ra=prior.Uniform(minimum=0.0, maximum=2 * np.pi, boundary="periodic"),
- dec=prior.Uniform(minimum=0.0, maximum=np.pi, boundary="reflective"),
- )
- )
- self.jump_proposal = bilby.gw.sampler.proposal.SkyLocationWanderJump(
- priors=self.priors
- )
-
- def tearDown(self):
- del self.priors
- del self.jump_proposal
-
- def test_jump_proposal_call_without_inverse_temperature(self):
- with mock.patch("random.gauss") as m:
- m.return_value = 1
- sample = proposal.Sample(dict(ra=0.2, dec=-0.5))
- expected = proposal.Sample(dict(ra=1.2, dec=0.5))
- new_sample = self.jump_proposal(sample)
- for key, value in new_sample.items():
- self.assertAlmostEqual(expected[key], value)
- m.assert_called_with(0, 1.0 / 2 / np.pi)
-
- def test_jump_proposal_call_with_inverse_temperature(self):
- with mock.patch("random.gauss") as m:
- m.return_value = 1
- sample = proposal.Sample(dict(ra=0.2, dec=-0.5))
- expected = proposal.Sample(dict(ra=1.2, dec=0.5))
- new_sample = self.jump_proposal(sample, inverse_temperature=2.0)
- for key, value in new_sample.items():
- self.assertAlmostEqual(expected[key], value)
- m.assert_called_with(0, np.sqrt(1 / 2.0) / 2 / np.pi)
-
-
-class TestCorrelatedPolarisationPhaseJump(unittest.TestCase):
- def setUp(self):
- self.priors = prior.PriorDict(
- dict(
- phase=prior.Uniform(minimum=0.0, maximum=2 * np.pi),
- psi=prior.Uniform(minimum=0.0, maximum=np.pi),
- )
- )
- self.jump_proposal = bilby.gw.sampler.proposal.CorrelatedPolarisationPhaseJump(
- priors=self.priors
- )
-
- def tearDown(self):
- del self.priors
- del self.jump_proposal
-
- def test_jump_proposal_call_case_1(self):
- with mock.patch("random.random") as m:
- m.return_value = 0.3
- sample = proposal.Sample(dict(phase=0.2, psi=0.5))
- alpha = 3.0 * np.pi * 0.3
- beta = 0.3
- expected = proposal.Sample(
- dict(phase=0.5 * (alpha - beta), psi=0.5 * (alpha + beta))
- )
- self.assertEqual(expected, self.jump_proposal(sample, coordinates=None))
-
- def test_jump_proposal_call_case_2(self):
- with mock.patch("random.random") as m:
- m.return_value = 0.7
- sample = proposal.Sample(dict(phase=0.2, psi=0.5))
- alpha = 0.7
- beta = 3.0 * np.pi * 0.7 - 2 * np.pi
- expected = proposal.Sample(
- dict(phase=0.5 * (alpha - beta), psi=0.5 * (alpha + beta))
- )
- self.assertEqual(expected, self.jump_proposal(sample))
-
-
-class TestPolarisationPhaseJump(unittest.TestCase):
- def setUp(self):
- self.priors = prior.PriorDict(
- dict(
- phase=prior.Uniform(minimum=0.0, maximum=2 * np.pi),
- psi=prior.Uniform(minimum=0.0, maximum=np.pi),
- )
- )
- self.jump_proposal = bilby.gw.sampler.proposal.PolarisationPhaseJump(
- priors=self.priors
- )
-
- def tearDown(self):
- del self.priors
- del self.jump_proposal
-
- def test_jump_proposal_call(self):
- sample = proposal.Sample(dict(phase=0.2, psi=0.5))
- expected = proposal.Sample(dict(phase=0.2 + np.pi, psi=0.5 + np.pi / 2))
- self.assertEqual(expected, self.jump_proposal(sample))
-
-
-class TestDrawFlatPrior(unittest.TestCase):
- def setUp(self):
- self.priors = prior.PriorDict(
- dict(
- phase=prior.Uniform(minimum=0.0, maximum=2 * np.pi),
- psi=prior.Cosine(minimum=0.0, maximum=np.pi),
- )
- )
- self.jump_proposal = proposal.DrawFlatPrior(priors=self.priors)
-
- def tearDown(self):
- del self.priors
- del self.jump_proposal
-
- def test_jump_proposal_call(self):
- with mock.patch("bilby.core.prior.Uniform.sample") as m:
- m.return_value = 0.3
- sample = proposal.Sample(dict(phase=0.2, psi=0.5))
- expected = proposal.Sample(dict(phase=0.3, psi=0.3))
- self.assertEqual(expected, self.jump_proposal(sample))
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/core/sampler/ptemcee_test.py b/test/core/sampler/ptemcee_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..70abcb0af21e3a9a55ca486a1c0c0981a66dc2f7
--- /dev/null
+++ b/test/core/sampler/ptemcee_test.py
@@ -0,0 +1,66 @@
+import unittest
+
+from mock import MagicMock
+
+import bilby
+
+
+class TestPTEmcee(unittest.TestCase):
+ def setUp(self):
+ self.likelihood = MagicMock()
+ self.priors = bilby.core.prior.PriorDict(
+ dict(a=bilby.core.prior.Uniform(0, 1), b=bilby.core.prior.Uniform(0, 1))
+ )
+ self.sampler = bilby.core.sampler.Ptemcee(
+ self.likelihood,
+ self.priors,
+ outdir="outdir",
+ label="label",
+ use_ratio=False,
+ plot=False,
+ skip_import_verification=True,
+ )
+
+ def tearDown(self):
+ del self.likelihood
+ del self.priors
+ del self.sampler
+
+ def test_default_kwargs(self):
+ expected = dict(
+ ntemps=20,
+ nwalkers=200,
+ Tmax=None,
+ betas=None,
+ a=2.0,
+ adaptation_lag=10000,
+ adaptation_time=100,
+ random=None,
+ adapt=True,
+ swap_ratios=False,
+ )
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+ def test_translate_kwargs(self):
+ expected = dict(
+ ntemps=20,
+ nwalkers=200,
+ Tmax=None,
+ betas=None,
+ a=2.0,
+ adaptation_lag=10000,
+ adaptation_time=100,
+ random=None,
+ adapt=True,
+ swap_ratios=False,
+ )
+ for equiv in bilby.core.sampler.base_sampler.MCMCSampler.nwalkers_equiv_kwargs:
+ new_kwargs = self.sampler.kwargs.copy()
+ del new_kwargs["nwalkers"]
+ new_kwargs[equiv] = 200
+ self.sampler.kwargs = new_kwargs
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/core/sampler/ptmcmc_test.py b/test/core/sampler/ptmcmc_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..9b4a926f802e562fb325c5744d9437ef8ea8fae8
--- /dev/null
+++ b/test/core/sampler/ptmcmc_test.py
@@ -0,0 +1,5 @@
+import unittest
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/core/sampler/pymc3_test.py b/test/core/sampler/pymc3_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..d8a28ad48b13d70e0c712ecc9066b5c2804fd0a0
--- /dev/null
+++ b/test/core/sampler/pymc3_test.py
@@ -0,0 +1,85 @@
+import unittest
+
+from mock import MagicMock
+
+import bilby
+
+
+class TestPyMC3(unittest.TestCase):
+ def setUp(self):
+ self.likelihood = MagicMock()
+ self.priors = bilby.core.prior.PriorDict(
+ dict(a=bilby.core.prior.Uniform(0, 1), b=bilby.core.prior.Uniform(0, 1))
+ )
+ self.sampler = bilby.core.sampler.Pymc3(
+ self.likelihood,
+ self.priors,
+ outdir="outdir",
+ label="label",
+ use_ratio=False,
+ plot=False,
+ skip_import_verification=True,
+ )
+
+ def tearDown(self):
+ del self.likelihood
+ del self.priors
+ del self.sampler
+
+ def test_default_kwargs(self):
+ expected = dict(
+ draws=500,
+ step=None,
+ init="auto",
+ n_init=200000,
+ start=None,
+ trace=None,
+ chain_idx=0,
+ chains=2,
+ cores=1,
+ tune=500,
+ progressbar=True,
+ model=None,
+ nuts_kwargs=None,
+ step_kwargs=None,
+ random_seed=None,
+ discard_tuned_samples=True,
+ compute_convergence_checks=True,
+ )
+ expected.update(self.sampler.default_nuts_kwargs)
+ expected.update(self.sampler.default_step_kwargs)
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+ def test_translate_kwargs(self):
+ expected = dict(
+ draws=500,
+ step=None,
+ init="auto",
+ n_init=200000,
+ start=None,
+ trace=None,
+ chain_idx=0,
+ chains=2,
+ cores=1,
+ tune=500,
+ progressbar=True,
+ model=None,
+ nuts_kwargs=None,
+ step_kwargs=None,
+ random_seed=None,
+ discard_tuned_samples=True,
+ compute_convergence_checks=True,
+ )
+ expected.update(self.sampler.default_nuts_kwargs)
+ expected.update(self.sampler.default_step_kwargs)
+ self.sampler.kwargs["draws"] = 123
+ for equiv in bilby.core.sampler.base_sampler.NestedSampler.npoints_equiv_kwargs:
+ new_kwargs = self.sampler.kwargs.copy()
+ del new_kwargs["draws"]
+ new_kwargs[equiv] = 500
+ self.sampler.kwargs = new_kwargs
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/core/sampler/pymultinest_test.py b/test/core/sampler/pymultinest_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..41c3de4077e578e33bb6e65f9a19efade1cff424
--- /dev/null
+++ b/test/core/sampler/pymultinest_test.py
@@ -0,0 +1,72 @@
+import unittest
+
+from mock import MagicMock
+
+import bilby
+
+
+class TestPymultinest(unittest.TestCase):
+ def setUp(self):
+ self.likelihood = MagicMock()
+ self.priors = bilby.core.prior.PriorDict(
+ dict(a=bilby.core.prior.Uniform(0, 1), b=bilby.core.prior.Uniform(0, 1))
+ )
+ self.priors["a"] = bilby.core.prior.Prior(boundary="periodic")
+ self.priors["b"] = bilby.core.prior.Prior(boundary="reflective")
+ self.sampler = bilby.core.sampler.Pymultinest(
+ self.likelihood,
+ self.priors,
+ outdir="outdir",
+ label="label",
+ use_ratio=False,
+ plot=False,
+ skip_import_verification=True,
+ )
+
+ def tearDown(self):
+ del self.likelihood
+ del self.priors
+ del self.sampler
+
+ def test_default_kwargs(self):
+ expected = dict(importance_nested_sampling=False, resume=True,
+ verbose=True, sampling_efficiency='parameter',
+ n_live_points=500, n_params=2,
+ n_clustering_params=None, wrapped_params=None,
+ multimodal=True, const_efficiency_mode=False,
+ evidence_tolerance=0.5,
+ n_iter_before_update=100, null_log_evidence=-1e90,
+ max_modes=100, mode_tolerance=-1e90, seed=-1,
+ context=0, write_output=True, log_zero=-1e100,
+ max_iter=0, init_MPI=False, dump_callback='dumper')
+ self.sampler.kwargs['dump_callback'] = 'dumper' # Check like the dynesty print_func
+ self.assertListEqual([1, 0], self.sampler.kwargs['wrapped_params']) # Check this separately
+ self.sampler.kwargs['wrapped_params'] = None # The dict comparison can't handle lists
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+ def test_translate_kwargs(self):
+ expected = dict(importance_nested_sampling=False, resume=True,
+ verbose=True, sampling_efficiency='parameter',
+ n_live_points=123, n_params=2,
+ n_clustering_params=None, wrapped_params=None,
+ multimodal=True, const_efficiency_mode=False,
+ evidence_tolerance=0.5,
+ n_iter_before_update=100, null_log_evidence=-1e90,
+ max_modes=100, mode_tolerance=-1e90, seed=-1,
+ context=0, write_output=True, log_zero=-1e100,
+ max_iter=0, init_MPI=False, dump_callback='dumper')
+
+ for equiv in bilby.core.sampler.base_sampler.NestedSampler.npoints_equiv_kwargs:
+ new_kwargs = self.sampler.kwargs.copy()
+ del new_kwargs["n_live_points"]
+ new_kwargs[
+ "wrapped_params"
+ ] = None # The dict comparison can't handle lists
+ new_kwargs['dump_callback'] = 'dumper' # Check this like Dynesty print_func
+ new_kwargs[equiv] = 123
+ self.sampler.kwargs = new_kwargs
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/core/sampler/sampler_run_test.py b/test/core/sampler/sampler_run_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..7173c0e2d58711c788e172fedbf9987dc57babbe
--- /dev/null
+++ b/test/core/sampler/sampler_run_test.py
@@ -0,0 +1,165 @@
+from __future__ import absolute_import
+import bilby
+import unittest
+import numpy as np
+import shutil
+
+
+class TestRunningSamplers(unittest.TestCase):
+ def setUp(self):
+ np.random.seed(42)
+ bilby.core.utils.command_line_args.bilby_test_mode = False
+ self.x = np.linspace(0, 1, 11)
+ self.model = lambda x, m, c: m * x + c
+ self.injection_parameters = dict(m=0.5, c=0.2)
+ self.sigma = 0.1
+ self.y = self.model(self.x, **self.injection_parameters) + np.random.normal(
+ 0, self.sigma, len(self.x)
+ )
+ self.likelihood = bilby.likelihood.GaussianLikelihood(
+ self.x, self.y, self.model, self.sigma
+ )
+
+ self.priors = bilby.core.prior.PriorDict()
+ self.priors["m"] = bilby.core.prior.Uniform(0, 5, boundary="reflective")
+ self.priors["c"] = bilby.core.prior.Uniform(-2, 2, boundary="reflective")
+ bilby.core.utils.check_directory_exists_and_if_not_mkdir("outdir")
+
+ def tearDown(self):
+ del self.likelihood
+ del self.priors
+ bilby.core.utils.command_line_args.bilby_test_mode = False
+ shutil.rmtree("outdir")
+
+ def test_run_cpnest(self):
+ _ = bilby.run_sampler(
+ likelihood=self.likelihood,
+ priors=self.priors,
+ sampler="cpnest",
+ nlive=100,
+ save=False,
+ resume=False,
+ )
+
+ def test_run_dynesty(self):
+ _ = bilby.run_sampler(
+ likelihood=self.likelihood,
+ priors=self.priors,
+ sampler="dynesty",
+ nlive=100,
+ save=False,
+ )
+
+ def test_run_dynamic_dynesty(self):
+ _ = bilby.run_sampler(
+ likelihood=self.likelihood,
+ priors=self.priors,
+ sampler="dynamic_dynesty",
+ nlive_init=100,
+ nlive_batch=100,
+ dlogz_init=1.0,
+ maxbatch=0,
+ maxcall=100,
+ bound="single",
+ save=False,
+ )
+
+ def test_run_emcee(self):
+ _ = bilby.run_sampler(
+ likelihood=self.likelihood,
+ priors=self.priors,
+ sampler="emcee",
+ iterations=1000,
+ nwalkers=10,
+ save=False,
+ )
+
+ def test_run_kombine(self):
+ _ = bilby.run_sampler(
+ likelihood=self.likelihood,
+ priors=self.priors,
+ sampler="kombine",
+ iterations=1000,
+ nwalkers=100,
+ save=False,
+ autoburnin=True,
+ )
+
+ def test_run_nestle(self):
+ _ = bilby.run_sampler(
+ likelihood=self.likelihood,
+ priors=self.priors,
+ sampler="nestle",
+ nlive=100,
+ save=False,
+ )
+
+ def test_run_pypolychord(self):
+ _ = bilby.run_sampler(
+ likelihood=self.likelihood,
+ priors=self.priors,
+ sampler="pypolychord",
+ nlive=100,
+ save=False,
+ )
+
+ def test_run_ptemcee(self):
+ _ = bilby.run_sampler(
+ likelihood=self.likelihood,
+ priors=self.priors,
+ sampler="ptemcee",
+ nsamples=100,
+ nwalkers=50,
+ burn_in_act=1,
+ ntemps=1,
+ frac_threshold=0.5,
+ save=False,
+ )
+
+ def test_run_pymc3(self):
+ _ = bilby.run_sampler(
+ likelihood=self.likelihood,
+ priors=self.priors,
+ sampler="pymc3",
+ draws=50,
+ tune=50,
+ n_init=1000,
+ save=False,
+ )
+
+ def test_run_pymultinest(self):
+ _ = bilby.run_sampler(
+ likelihood=self.likelihood,
+ priors=self.priors,
+ sampler="pymultinest",
+ nlive=100,
+ save=False,
+ )
+
+ def test_run_PTMCMCSampler(self):
+ _ = bilby.run_sampler(
+ likelihood=self.likelihood,
+ priors=self.priors,
+ sampler="PTMCMCsampler",
+ Niter=101,
+ burn=2,
+ isave=100,
+ save=False,
+ )
+
+ def test_run_ultranest(self):
+ # run using NestedSampler (with nlive specified)
+ _ = bilby.run_sampler(
+ likelihood=self.likelihood, priors=self.priors,
+ sampler="ultranest", nlive=100, save=False,
+ )
+
+ # run using ReactiveNestedSampler (with no nlive given)
+ _ = bilby.run_sampler(
+ likelihood=self.likelihood, priors=self.priors,
+ sampler='ultranest', save=False,
+ )
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/core/sampler/ultranest_test.py b/test/core/sampler/ultranest_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..76354e08281c379d28eda0abd9d18992220c4989
--- /dev/null
+++ b/test/core/sampler/ultranest_test.py
@@ -0,0 +1,106 @@
+import shutil
+import unittest
+
+from mock import MagicMock
+
+import bilby
+
+
+class TestUltranest(unittest.TestCase):
+
+ def setUp(self):
+ self.maxDiff = None
+ self.likelihood = MagicMock()
+ self.priors = bilby.core.prior.PriorDict(
+ dict(a=bilby.core.prior.Uniform(0, 1),
+ b=bilby.core.prior.Uniform(0, 1)))
+ self.priors["a"] = bilby.core.prior.Prior(boundary="periodic")
+ self.priors["b"] = bilby.core.prior.Prior(boundary="reflective")
+ self.sampler = bilby.core.sampler.Ultranest(self.likelihood, self.priors,
+ outdir="outdir", label="label",
+ use_ratio=False, plot=False,
+ skip_import_verification=True)
+
+ def tearDown(self):
+ del self.likelihood
+ del self.priors
+ del self.sampler
+ shutil.rmtree("outdir")
+
+ def test_default_kwargs(self):
+ expected = dict(
+ resume=True,
+ show_status=True,
+ num_live_points=None,
+ wrapped_params=None,
+ derived_param_names=None,
+ run_num=None,
+ vectorized=False,
+ num_test_samples=2,
+ draw_multiple=True,
+ num_bootstraps=30,
+ update_interval_iter=None,
+ update_interval_ncall=None,
+ log_interval=None,
+ dlogz=None,
+ max_iters=None,
+ update_interval_iter_fraction=0.2,
+ viz_callback=None,
+ dKL=0.5,
+ frac_remain=0.01,
+ Lepsilon=0.001,
+ min_ess=400,
+ max_ncalls=None,
+ max_num_improvement_loops=-1,
+ min_num_live_points=400,
+ cluster_num_live_points=40,
+ step_sampler=None,
+ )
+ self.assertListEqual([1, 0], self.sampler.kwargs["wrapped_params"]) # Check this separately
+ self.sampler.kwargs["wrapped_params"] = None # The dict comparison can't handle lists
+ self.sampler.kwargs["derived_param_names"] = None
+ self.sampler.kwargs["viz_callback"] = None
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+ def test_translate_kwargs(self):
+ expected = dict(
+ resume=True,
+ show_status=True,
+ num_live_points=123,
+ wrapped_params=None,
+ derived_param_names=None,
+ run_num=None,
+ vectorized=False,
+ num_test_samples=2,
+ draw_multiple=True,
+ num_bootstraps=30,
+ update_interval_iter=None,
+ update_interval_ncall=None,
+ log_interval=None,
+ dlogz=None,
+ max_iters=None,
+ update_interval_iter_fraction=0.2,
+ viz_callback=None,
+ dKL=0.5,
+ frac_remain=0.01,
+ Lepsilon=0.001,
+ min_ess=400,
+ max_ncalls=None,
+ max_num_improvement_loops=-1,
+ min_num_live_points=400,
+ cluster_num_live_points=40,
+ step_sampler=None,
+ )
+ for equiv in bilby.core.sampler.base_sampler.NestedSampler.npoints_equiv_kwargs:
+ new_kwargs = self.sampler.kwargs.copy()
+ del new_kwargs['num_live_points']
+ new_kwargs[equiv] = 123
+ self.sampler.kwargs = new_kwargs
+ self.sampler.kwargs["wrapped_params"] = None
+ self.sampler.kwargs["derived_param_names"] = None
+ self.sampler.kwargs["viz_callback"] = None
+ self.assertDictEqual(expected, self.sampler.kwargs)
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/series_test.py b/test/core/series_test.py
similarity index 100%
rename from test/series_test.py
rename to test/core/series_test.py
diff --git a/test/utils_test.py b/test/core/utils_test.py
similarity index 100%
rename from test/utils_test.py
rename to test/core/utils_test.py
diff --git a/test/detector_test.py b/test/detector_test.py
deleted file mode 100644
index 7f8b0512a854faf8ae58a0a3731bd740b985c616..0000000000000000000000000000000000000000
--- a/test/detector_test.py
+++ /dev/null
@@ -1,1709 +0,0 @@
-from __future__ import absolute_import
-
-import bilby
-import unittest
-import mock
-from mock import MagicMock
-from mock import patch
-import numpy as np
-import scipy.signal.windows
-import os
-import sys
-from shutil import rmtree
-import logging
-import deepdish as dd
-
-
-class TestInterferometerGeometry(unittest.TestCase):
- def setUp(self):
- self.length = 30
- self.latitude = 1
- self.longitude = 2
- self.elevation = 3
- self.xarm_azimuth = 4
- self.yarm_azimuth = 5
- self.xarm_tilt = 0.0
- self.yarm_tilt = 0.0
- self.geometry = bilby.gw.detector.InterferometerGeometry(
- length=self.length,
- latitude=self.latitude,
- longitude=self.longitude,
- elevation=self.elevation,
- xarm_azimuth=self.xarm_azimuth,
- yarm_azimuth=self.yarm_azimuth,
- xarm_tilt=self.xarm_tilt,
- yarm_tilt=self.yarm_tilt,
- )
-
- def tearDown(self):
- del self.length
- del self.latitude
- del self.longitude
- del self.elevation
- del self.xarm_azimuth
- del self.yarm_azimuth
- del self.xarm_tilt
- del self.yarm_tilt
- del self.geometry
-
- def test_length_setting(self):
- self.assertEqual(self.geometry.length, self.length)
-
- def test_latitude_setting(self):
- self.assertEqual(self.geometry.latitude, self.latitude)
-
- def test_longitude_setting(self):
- self.assertEqual(self.geometry.longitude, self.longitude)
-
- def test_elevation_setting(self):
- self.assertEqual(self.geometry.elevation, self.elevation)
-
- def test_xarm_azi_setting(self):
- self.assertEqual(self.geometry.xarm_azimuth, self.xarm_azimuth)
-
- def test_yarm_azi_setting(self):
- self.assertEqual(self.geometry.yarm_azimuth, self.yarm_azimuth)
-
- def test_xarm_tilt_setting(self):
- self.assertEqual(self.geometry.xarm_tilt, self.xarm_tilt)
-
- def test_yarm_tilt_setting(self):
- self.assertEqual(self.geometry.yarm_tilt, self.yarm_tilt)
-
- def test_vertex_without_update(self):
- _ = self.geometry.vertex
- with mock.patch("bilby.gw.utils.get_vertex_position_geocentric") as m:
- m.return_value = np.array([1])
- self.assertFalse(np.array_equal(self.geometry.vertex, np.array([1])))
-
- def test_vertex_with_latitude_update(self):
- with mock.patch("bilby.gw.utils.get_vertex_position_geocentric") as m:
- m.return_value = np.array([1])
- self.geometry.latitude = 5
- self.assertEqual(self.geometry.vertex, np.array([1]))
-
- def test_vertex_with_longitude_update(self):
- with mock.patch("bilby.gw.utils.get_vertex_position_geocentric") as m:
- m.return_value = np.array([1])
- self.geometry.longitude = 5
- self.assertEqual(self.geometry.vertex, np.array([1]))
-
- def test_vertex_with_elevation_update(self):
- with mock.patch("bilby.gw.utils.get_vertex_position_geocentric") as m:
- m.return_value = np.array([1])
- self.geometry.elevation = 5
- self.assertEqual(self.geometry.vertex, np.array([1]))
-
- def test_x_without_update(self):
- _ = self.geometry.x
- self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
-
- self.assertFalse(np.array_equal(self.geometry.x, np.array([1])))
-
- def test_x_with_xarm_tilt_update(self):
- self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
- self.geometry.xarm_tilt = 0
- self.assertTrue(np.array_equal(self.geometry.x, np.array([1])))
-
- def test_x_with_xarm_azimuth_update(self):
- self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
- self.geometry.xarm_azimuth = 0
- self.assertTrue(np.array_equal(self.geometry.x, np.array([1])))
-
- def test_x_with_longitude_update(self):
- self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
- self.geometry.longitude = 0
- self.assertTrue(np.array_equal(self.geometry.x, np.array([1])))
-
- def test_x_with_latitude_update(self):
- self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
- self.geometry.latitude = 0
- self.assertTrue(np.array_equal(self.geometry.x, np.array([1])))
-
- def test_y_without_update(self):
- _ = self.geometry.y
- self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
-
- self.assertFalse(np.array_equal(self.geometry.y, np.array([1])))
-
- def test_y_with_yarm_tilt_update(self):
- self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
- self.geometry.yarm_tilt = 0
- self.assertTrue(np.array_equal(self.geometry.y, np.array([1])))
-
- def test_y_with_yarm_azimuth_update(self):
- self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
- self.geometry.yarm_azimuth = 0
- self.assertTrue(np.array_equal(self.geometry.y, np.array([1])))
-
- def test_y_with_longitude_update(self):
- self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
- self.geometry.longitude = 0
- self.assertTrue(np.array_equal(self.geometry.y, np.array([1])))
-
- def test_y_with_latitude_update(self):
- self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
- self.geometry.latitude = 0
- self.assertTrue(np.array_equal(self.geometry.y, np.array([1])))
-
- def test_detector_tensor_without_update(self):
- _ = self.geometry.detector_tensor
- with mock.patch("numpy.einsum") as m:
- m.return_value = 1
- expected = np.array(
- [
- [-9.24529394e-06, 1.02425803e-04, 3.24550668e-04],
- [1.02425803e-04, 1.37390844e-03, -8.61137566e-03],
- [3.24550668e-04, -8.61137566e-03, -1.36466315e-03],
- ]
- )
- self.assertTrue(np.allclose(expected, self.geometry.detector_tensor))
-
- def test_detector_tensor_with_x_azimuth_update(self):
- _ = self.geometry.detector_tensor
- with mock.patch("numpy.einsum") as m:
- m.return_value = 1
- self.geometry.xarm_azimuth = 1
- self.assertEqual(0, self.geometry.detector_tensor)
-
- def test_detector_tensor_with_y_azimuth_update(self):
- _ = self.geometry.detector_tensor
- with mock.patch("numpy.einsum") as m:
- m.return_value = 1
- self.geometry.yarm_azimuth = 1
- self.assertEqual(0, self.geometry.detector_tensor)
-
- def test_detector_tensor_with_x_tilt_update(self):
- _ = self.geometry.detector_tensor
- with mock.patch("numpy.einsum") as m:
- m.return_value = 1
- self.geometry.xarm_tilt = 1
- self.assertEqual(0, self.geometry.detector_tensor)
-
- def test_detector_tensor_with_y_tilt_update(self):
- _ = self.geometry.detector_tensor
- with mock.patch("numpy.einsum") as m:
- m.return_value = 1
- self.geometry.yarm_tilt = 1
- self.assertEqual(0, self.geometry.detector_tensor)
-
- def test_detector_tensor_with_longitude_update(self):
- with mock.patch("numpy.einsum") as m:
- m.return_value = 1
- self.geometry.longitude = 1
- self.assertEqual(0, self.geometry.detector_tensor)
-
- def test_detector_tensor_with_latitude_update(self):
- with mock.patch("numpy.einsum") as m:
- _ = self.geometry.detector_tensor
- m.return_value = 1
- self.geometry.latitude = 1
- self.assertEqual(self.geometry.detector_tensor, 0)
-
- def test_unit_vector_along_arm_default(self):
- with self.assertRaises(ValueError):
- self.geometry.unit_vector_along_arm("z")
-
- def test_unit_vector_along_arm_x(self):
- with mock.patch("numpy.array") as m:
- m.return_value = 1
- self.geometry.xarm_tilt = 0
- self.geometry.xarm_azimuth = 0
- self.geometry.yarm_tilt = 0
- self.geometry.yarm_azimuth = 90
- self.assertAlmostEqual(self.geometry.unit_vector_along_arm("x"), 1)
-
- def test_unit_vector_along_arm_y(self):
- with mock.patch("numpy.array") as m:
- m.return_value = 1
- self.geometry.xarm_tilt = 0
- self.geometry.xarm_azimuth = 90
- self.geometry.yarm_tilt = 0
- self.geometry.yarm_azimuth = 180
- self.assertAlmostEqual(self.geometry.unit_vector_along_arm("y"), -1)
-
- def test_repr(self):
- expected = (
- "InterferometerGeometry(length={}, latitude={}, longitude={}, elevation={}, xarm_azimuth={}, "
- "yarm_azimuth={}, xarm_tilt={}, yarm_tilt={})".format(
- float(self.length),
- float(self.latitude),
- float(self.longitude),
- float(self.elevation),
- float(self.xarm_azimuth),
- float(self.yarm_azimuth),
- float(self.xarm_tilt),
- float(self.yarm_tilt),
- )
- )
- self.assertEqual(expected, repr(self.geometry))
-
-
-class TestInterferometer(unittest.TestCase):
- def setUp(self):
- self.name = "name"
- self.power_spectral_density = (
- bilby.gw.detector.PowerSpectralDensity.from_aligo()
- )
- self.minimum_frequency = 10
- self.maximum_frequency = 20
- self.length = 30
- self.latitude = 1
- self.longitude = 2
- self.elevation = 3
- self.xarm_azimuth = 4
- self.yarm_azimuth = 5
- self.xarm_tilt = 0.0
- self.yarm_tilt = 0.0
- # noinspection PyTypeChecker
- self.ifo = bilby.gw.detector.Interferometer(
- name=self.name,
- power_spectral_density=self.power_spectral_density,
- minimum_frequency=self.minimum_frequency,
- maximum_frequency=self.maximum_frequency,
- length=self.length,
- latitude=self.latitude,
- longitude=self.longitude,
- elevation=self.elevation,
- xarm_azimuth=self.xarm_azimuth,
- yarm_azimuth=self.yarm_azimuth,
- xarm_tilt=self.xarm_tilt,
- yarm_tilt=self.yarm_tilt,
- )
- self.ifo.strain_data.set_from_frequency_domain_strain(
- np.linspace(0, 4096, 4097), sampling_frequency=4096, duration=2
- )
- self.outdir = "outdir"
-
- self.injection_polarizations = dict()
- np.random.seed(42)
- self.injection_polarizations["plus"] = np.random.random(4097)
- self.injection_polarizations["cross"] = np.random.random(4097)
-
- self.waveform_generator = MagicMock()
- self.wg_polarizations = dict(
- plus=np.random.random(4097), cross=np.random.random(4097)
- )
- self.waveform_generator.frequency_domain_strain = (
- lambda _: self.wg_polarizations
- )
- self.parameters = dict(ra=0.0, dec=0.0, geocent_time=0.0, psi=0.0)
-
- bilby.core.utils.check_directory_exists_and_if_not_mkdir(self.outdir)
-
- def tearDown(self):
- del self.name
- del self.power_spectral_density
- del self.minimum_frequency
- del self.maximum_frequency
- del self.length
- del self.latitude
- del self.longitude
- del self.elevation
- del self.xarm_azimuth
- del self.yarm_azimuth
- del self.xarm_tilt
- del self.yarm_tilt
- del self.ifo
- del self.injection_polarizations
- del self.wg_polarizations
- del self.waveform_generator
- del self.parameters
- rmtree(self.outdir)
-
- def test_name_setting(self):
- self.assertEqual(self.ifo.name, self.name)
-
- def test_psd_setting(self):
- self.assertEqual(self.ifo.power_spectral_density, self.power_spectral_density)
-
- def test_min_freq_setting(self):
- self.assertEqual(self.ifo.strain_data.minimum_frequency, self.minimum_frequency)
-
- def test_max_freq_setting(self):
- self.assertEqual(self.ifo.strain_data.maximum_frequency, self.maximum_frequency)
-
- def test_antenna_response_default(self):
- with mock.patch("bilby.gw.utils.get_polarization_tensor") as m:
- with mock.patch("numpy.einsum") as n:
- m.return_value = 0
- n.return_value = 1
- self.assertEqual(self.ifo.antenna_response(234, 52, 54, 76, "plus"), 1)
-
- def test_antenna_response_einsum(self):
- with mock.patch("bilby.gw.utils.get_polarization_tensor") as m:
- m.return_value = np.ones((3, 3))
- self.assertAlmostEqual(
- self.ifo.antenna_response(234, 52, 54, 76, "plus"),
- self.ifo.detector_tensor.sum(),
- )
-
- def test_get_detector_response_default_behaviour(self):
- self.ifo.antenna_response = MagicMock(return_value=1)
- self.ifo.time_delay_from_geocenter = MagicMock(return_value=0)
- self.ifo.epoch = 0
- self.minimum_frequency = 10
- self.maximum_frequency = 20
- # self.ifo.frequency_array = np.array([8, 12, 16, 20, 24])
- plus = np.linspace(0, 4096, 4097)
- response = self.ifo.get_detector_response(
- waveform_polarizations=dict(plus=plus),
- parameters=dict(ra=0, dec=0, geocent_time=0, psi=0),
- )
- self.assertTrue(
- np.array_equal(response, plus * self.ifo.frequency_mask * np.exp(-0j))
- )
-
- def test_get_detector_response_with_dt(self):
- self.ifo.antenna_response = MagicMock(return_value=1)
- self.ifo.time_delay_from_geocenter = MagicMock(return_value=0)
- self.ifo.epoch = 1
- self.minimum_frequency = 10
- self.maximum_frequency = 20
- plus = np.linspace(0, 4096, 4097)
- response = self.ifo.get_detector_response(
- waveform_polarizations=dict(plus=plus),
- parameters=dict(ra=0, dec=0, geocent_time=0, psi=0),
- )
- expected_response = (
- plus
- * self.ifo.frequency_mask
- * np.exp(-1j * 2 * np.pi * self.ifo.frequency_array)
- )
- self.assertTrue(np.allclose(abs(expected_response), abs(response)))
-
- def test_get_detector_response_multiple_modes(self):
- self.ifo.antenna_response = MagicMock(return_value=1)
- self.ifo.time_delay_from_geocenter = MagicMock(return_value=0)
- self.ifo.epoch = 0
- self.minimum_frequency = 10
- self.maximum_frequency = 20
- plus = np.linspace(0, 4096, 4097)
- cross = np.linspace(0, 4096, 4097)
- response = self.ifo.get_detector_response(
- waveform_polarizations=dict(plus=plus, cross=cross),
- parameters=dict(ra=0, dec=0, geocent_time=0, psi=0),
- )
- self.assertTrue(
- np.array_equal(
- response, (plus + cross) * self.ifo.frequency_mask * np.exp(-0j)
- )
- )
-
- def test_inject_signal_from_waveform_polarizations_correct_injection(self):
- original_strain = self.ifo.strain_data.frequency_domain_strain
- self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
- self.ifo.inject_signal_from_waveform_polarizations(
- parameters=self.parameters,
- injection_polarizations=self.injection_polarizations,
- )
- expected = (
- self.injection_polarizations["plus"]
- + self.injection_polarizations["cross"]
- + original_strain
- )
- self.assertTrue(
- np.array_equal(expected, self.ifo.strain_data._frequency_domain_strain)
- )
-
- def test_inject_signal_from_waveform_polarizations_update_time_domain_strain(self):
- original_td_strain = self.ifo.strain_data.time_domain_strain
- self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
- self.ifo.inject_signal_from_waveform_polarizations(
- parameters=self.parameters,
- injection_polarizations=self.injection_polarizations,
- )
- self.assertFalse(
- np.array_equal(original_td_strain, self.ifo.strain_data.time_domain_strain)
- )
-
- def test_inject_signal_from_waveform_polarizations_meta_data(self):
- self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
- self.ifo.inject_signal_from_waveform_polarizations(
- parameters=self.parameters,
- injection_polarizations=self.injection_polarizations,
- )
- signal_ifo_expected = (
- self.injection_polarizations["plus"] + self.injection_polarizations["cross"]
- )
- self.assertAlmostEqual(
- self.ifo.optimal_snr_squared(signal=signal_ifo_expected).real,
- self.ifo.meta_data["optimal_SNR"] ** 2,
- 10,
- )
- self.assertAlmostEqual(
- self.ifo.matched_filter_snr(signal=signal_ifo_expected),
- self.ifo.meta_data["matched_filter_SNR"],
- 10,
- )
- self.assertDictEqual(self.parameters, self.ifo.meta_data["parameters"])
-
- def test_inject_signal_from_waveform_polarizations_incorrect_length(self):
- self.injection_polarizations["plus"] = np.random.random(1000)
- self.injection_polarizations["cross"] = np.random.random(1000)
- self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
- with self.assertRaises(ValueError):
- self.ifo.inject_signal_from_waveform_polarizations(
- parameters=self.parameters,
- injection_polarizations=self.injection_polarizations,
- )
-
- @patch.object(bilby.core.utils.logger, "warning")
- def test_inject_signal_outside_segment_logs_warning(self, m):
- self.parameters["geocent_time"] = 24345.0
- self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
- self.ifo.inject_signal_from_waveform_polarizations(
- parameters=self.parameters,
- injection_polarizations=self.injection_polarizations,
- )
- self.assertTrue(m.called)
-
- def test_inject_signal_from_waveform_generator_correct_return_value(self):
- self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
- returned_polarizations = self.ifo.inject_signal_from_waveform_generator(
- parameters=self.parameters, waveform_generator=self.waveform_generator
- )
- self.assertTrue(
- np.array_equal(
- self.wg_polarizations["plus"], returned_polarizations["plus"]
- )
- )
- self.assertTrue(
- np.array_equal(
- self.wg_polarizations["cross"], returned_polarizations["cross"]
- )
- )
-
- @patch.object(
- bilby.gw.detector.Interferometer, "inject_signal_from_waveform_generator"
- )
- def test_inject_signal_with_waveform_generator_correct_call(self, m):
- self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
- _ = self.ifo.inject_signal(
- parameters=self.parameters, waveform_generator=self.waveform_generator
- )
- m.assert_called_with(
- parameters=self.parameters, waveform_generator=self.waveform_generator
- )
-
- def test_inject_signal_from_waveform_generator_correct_injection(self):
- original_strain = self.ifo.strain_data.frequency_domain_strain
- self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
- injection_polarizations = self.ifo.inject_signal_from_waveform_generator(
- parameters=self.parameters, waveform_generator=self.waveform_generator
- )
- expected = (
- injection_polarizations["plus"]
- + injection_polarizations["cross"]
- + original_strain
- )
- self.assertTrue(
- np.array_equal(expected, self.ifo.strain_data._frequency_domain_strain)
- )
-
- def test_inject_signal_with_injection_polarizations(self):
- original_strain = self.ifo.strain_data.frequency_domain_strain
- self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
- self.ifo.inject_signal(
- parameters=self.parameters,
- injection_polarizations=self.injection_polarizations,
- )
- expected = (
- self.injection_polarizations["plus"]
- + self.injection_polarizations["cross"]
- + original_strain
- )
- self.assertTrue(
- np.array_equal(expected, self.ifo.strain_data._frequency_domain_strain)
- )
-
- @patch.object(
- bilby.gw.detector.Interferometer, "inject_signal_from_waveform_polarizations"
- )
- def test_inject_signal_with_injection_polarizations_and_waveform_generator(self, m):
- self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
- _ = self.ifo.inject_signal(
- parameters=self.parameters,
- waveform_generator=self.waveform_generator,
- injection_polarizations=self.injection_polarizations,
- )
- m.assert_called_with(
- parameters=self.parameters,
- injection_polarizations=self.injection_polarizations,
- )
- with self.assertRaises(ValueError):
- m.assert_called_with(
- parameters=self.parameters,
- injection_polarizations=self.wg_polarizations,
- )
-
- def test_inject_signal_raises_value_error(self):
- with self.assertRaises(ValueError):
- self.ifo.inject_signal(injection_polarizations=None, parameters=None)
-
- def test_time_delay_from_geocenter(self):
- with mock.patch("bilby.gw.utils.time_delay_geocentric") as m:
- m.return_value = 1
- self.assertEqual(self.ifo.time_delay_from_geocenter(1, 2, 3), 1)
-
- def test_vertex_position_geocentric(self):
- with mock.patch("bilby.gw.utils.get_vertex_position_geocentric") as m:
- m.return_value = 1
- self.assertEqual(self.ifo.vertex_position_geocentric(), 1)
-
- def test_optimal_snr_squared(self):
- """
- Merely checks parameters are given in the right order and the frequency
- mask is applied.
- """
- with mock.patch("bilby.gw.utils.noise_weighted_inner_product") as m:
- m.side_effect = lambda a, b, c, d: [a, b, c, d]
- signal = np.ones_like(self.ifo.power_spectral_density_array)
- mask = self.ifo.frequency_mask
- expected = [
- signal[mask],
- signal[mask],
- self.ifo.power_spectral_density_array[mask],
- self.ifo.strain_data.duration,
- ]
- actual = self.ifo.optimal_snr_squared(signal=signal)
- self.assertTrue(np.array_equal(expected[0], actual[0]))
- self.assertTrue(np.array_equal(expected[1], actual[1]))
- self.assertTrue(np.array_equal(expected[2], actual[2]))
- self.assertEqual(expected[3], actual[3])
-
- def test_repr(self):
- expected = (
- "Interferometer(name='{}', power_spectral_density={}, minimum_frequency={}, "
- "maximum_frequency={}, length={}, latitude={}, longitude={}, elevation={}, xarm_azimuth={}, "
- "yarm_azimuth={}, xarm_tilt={}, yarm_tilt={})".format(
- self.name,
- self.power_spectral_density,
- float(self.minimum_frequency),
- float(self.maximum_frequency),
- float(self.length),
- float(self.latitude),
- float(self.longitude),
- float(self.elevation),
- float(self.xarm_azimuth),
- float(self.yarm_azimuth),
- float(self.xarm_tilt),
- float(self.yarm_tilt),
- )
- )
- self.assertEqual(expected, repr(self.ifo))
-
- def test_to_and_from_hdf5_loading(self):
- if sys.version_info[0] < 3:
- with self.assertRaises(NotImplementedError):
- self.ifo.to_hdf5(outdir="outdir", label="test")
- else:
- self.ifo.to_hdf5(outdir="outdir", label="test")
- filename = self.ifo._hdf5_filename_from_outdir_label(
- outdir="outdir", label="test"
- )
- recovered_ifo = bilby.gw.detector.Interferometer.from_hdf5(filename)
- self.assertEqual(self.ifo, recovered_ifo)
-
- def test_to_and_from_hdf5_wrong_class(self):
- if sys.version_info[0] < 3:
- pass
- else:
- bilby.core.utils.check_directory_exists_and_if_not_mkdir("outdir")
- dd.io.save("./outdir/psd.h5", self.power_spectral_density)
- filename = self.ifo._hdf5_filename_from_outdir_label(
- outdir="outdir", label="psd"
- )
- with self.assertRaises(TypeError):
- bilby.gw.detector.Interferometer.from_hdf5(filename)
-
-
-class TestInterferometerEquals(unittest.TestCase):
- def setUp(self):
- self.name = "name"
- self.power_spectral_density_1 = (
- bilby.gw.detector.PowerSpectralDensity.from_aligo()
- )
- self.power_spectral_density_2 = (
- bilby.gw.detector.PowerSpectralDensity.from_aligo()
- )
- self.minimum_frequency = 10
- self.maximum_frequency = 20
- self.length = 30
- self.latitude = 1
- self.longitude = 2
- self.elevation = 3
- self.xarm_azimuth = 4
- self.yarm_azimuth = 5
- self.xarm_tilt = 0.0
- self.yarm_tilt = 0.0
- # noinspection PyTypeChecker
- self.duration = 1
- self.sampling_frequency = 200
- self.frequency_array = bilby.utils.create_frequency_series(
- sampling_frequency=self.sampling_frequency, duration=self.duration
- )
- self.strain = self.frequency_array
- self.ifo_1 = bilby.gw.detector.Interferometer(
- name=self.name,
- power_spectral_density=self.power_spectral_density_1,
- minimum_frequency=self.minimum_frequency,
- maximum_frequency=self.maximum_frequency,
- length=self.length,
- latitude=self.latitude,
- longitude=self.longitude,
- elevation=self.elevation,
- xarm_azimuth=self.xarm_azimuth,
- yarm_azimuth=self.yarm_azimuth,
- xarm_tilt=self.xarm_tilt,
- yarm_tilt=self.yarm_tilt,
- )
- self.ifo_2 = bilby.gw.detector.Interferometer(
- name=self.name,
- power_spectral_density=self.power_spectral_density_2,
- minimum_frequency=self.minimum_frequency,
- maximum_frequency=self.maximum_frequency,
- length=self.length,
- latitude=self.latitude,
- longitude=self.longitude,
- elevation=self.elevation,
- xarm_azimuth=self.xarm_azimuth,
- yarm_azimuth=self.yarm_azimuth,
- xarm_tilt=self.xarm_tilt,
- yarm_tilt=self.yarm_tilt,
- )
- self.ifo_1.set_strain_data_from_frequency_domain_strain(
- frequency_array=self.frequency_array, frequency_domain_strain=self.strain
- )
- self.ifo_2.set_strain_data_from_frequency_domain_strain(
- frequency_array=self.frequency_array, frequency_domain_strain=self.strain
- )
-
- def tearDown(self):
- del self.name
- del self.power_spectral_density_1
- del self.power_spectral_density_2
- del self.minimum_frequency
- del self.maximum_frequency
- del self.length
- del self.latitude
- del self.longitude
- del self.elevation
- del self.xarm_azimuth
- del self.yarm_azimuth
- del self.xarm_tilt
- del self.yarm_tilt
- del self.ifo_1
- del self.ifo_2
- del self.sampling_frequency
- del self.duration
- del self.frequency_array
- del self.strain
-
- def test_eq_true(self):
- self.assertEqual(self.ifo_1, self.ifo_2)
-
- def test_eq_false_different_psd(self):
- self.ifo_1.power_spectral_density.psd_array[0] = 1234
- self.assertNotEqual(self.ifo_1, self.ifo_2)
-
- def test_eq_false_different_minimum_frequency(self):
- self.ifo_1.minimum_frequency -= 1
- self.assertNotEqual(self.ifo_1, self.ifo_2)
-
- def test_eq_false_different_maximum_frequency(self):
- self.ifo_1.minimum_frequency -= 1
- self.assertNotEqual(self.ifo_1, self.ifo_2)
-
- def test_eq_false_different_length(self):
- self.ifo_1.length -= 1
- self.assertNotEqual(self.ifo_1, self.ifo_2)
-
- def test_eq_false_different_latitude(self):
- self.ifo_1.latitude -= 1
- self.assertNotEqual(self.ifo_1, self.ifo_2)
-
- def test_eq_false_different_longitude(self):
- self.ifo_1.longitude -= 1
- self.assertNotEqual(self.ifo_1, self.ifo_2)
-
- def test_eq_false_different_elevation(self):
- self.ifo_1.elevation -= 1
- self.assertNotEqual(self.ifo_1, self.ifo_2)
-
- def test_eq_false_different_xarm_azimuth(self):
- self.ifo_1.xarm_azimuth -= 1
- self.assertNotEqual(self.ifo_1, self.ifo_2)
-
- def test_eq_false_different_xarmtilt(self):
- self.ifo_1.xarm_tilt -= 1
- self.assertNotEqual(self.ifo_1, self.ifo_2)
-
- def test_eq_false_different_yarm_azimuth(self):
- self.ifo_1.yarm_azimuth -= 1
- self.assertNotEqual(self.ifo_1, self.ifo_2)
-
- def test_eq_false_different_yarm_tilt(self):
- self.ifo_1.yarm_tilt -= 1
- self.assertNotEqual(self.ifo_1, self.ifo_2)
-
- def test_eq_false_different_ifo_strain_data(self):
- self.strain = bilby.utils.create_frequency_series(
- sampling_frequency=self.sampling_frequency / 2, duration=self.duration * 2
- )
- self.ifo_1.set_strain_data_from_frequency_domain_strain(
- frequency_array=self.frequency_array, frequency_domain_strain=self.strain
- )
- self.assertNotEqual(self.ifo_1, self.ifo_2)
-
-
-class TestInterferometerStrainData(unittest.TestCase):
- def setUp(self):
- self.minimum_frequency = 10
- self.maximum_frequency = 20
- self.ifosd = bilby.gw.detector.InterferometerStrainData(
- minimum_frequency=self.minimum_frequency,
- maximum_frequency=self.maximum_frequency,
- )
-
- def tearDown(self):
- del self.minimum_frequency
- del self.maximum_frequency
- del self.ifosd
-
- def test_frequency_mask(self):
- self.minimum_frequency = 10
- self.maximum_frequency = 20
- with mock.patch("bilby.core.utils.create_frequency_series") as m:
- m.return_value = np.array([5, 15, 25])
- self.ifosd.set_from_frequency_domain_strain(
- frequency_domain_strain=np.array([0, 1, 2]),
- frequency_array=np.array([5, 15, 25]),
- )
- self.assertTrue(
- np.array_equal(self.ifosd.frequency_mask, [False, True, False])
- )
-
- def test_set_data_fails(self):
- with mock.patch("bilby.core.utils.create_frequency_series") as m:
- m.return_value = [1, 2, 3]
- with self.assertRaises(ValueError):
- self.ifosd.set_from_frequency_domain_strain(
- frequency_domain_strain=np.array([0, 1, 2])
- )
-
- def test_set_data_fails_too_much(self):
- with mock.patch("bilby.core.utils.create_frequency_series") as m:
- m.return_value = [1, 2, 3]
- with self.assertRaises(ValueError):
- self.ifosd.set_from_frequency_domain_strain(
- frequency_domain_strain=np.array([0, 1, 2]),
- frequency_array=np.array([1, 2, 3]),
- duration=3,
- sampling_frequency=1,
- )
-
- def test_start_time_init(self):
- with mock.patch("bilby.core.utils.create_frequency_series") as m:
- m.return_value = [1, 2, 3]
- duration = 3
- sampling_frequency = 1
- self.ifosd.set_from_frequency_domain_strain(
- frequency_domain_strain=np.array([0, 1, 2]),
- duration=duration,
- sampling_frequency=sampling_frequency,
- )
- self.assertTrue(self.ifosd.start_time == 0)
-
- def test_start_time_set(self):
- with mock.patch("bilby.core.utils.create_frequency_series") as m:
- m.return_value = [1, 2, 3]
- duration = 3
- sampling_frequency = 1
- self.ifosd.set_from_frequency_domain_strain(
- frequency_domain_strain=np.array([0, 1, 2]),
- duration=duration,
- sampling_frequency=sampling_frequency,
- start_time=10,
- )
- self.assertTrue(self.ifosd.start_time == 10)
-
- def test_time_array_frequency_array_consistency(self):
- duration = 1
- sampling_frequency = 10
- time_array = bilby.core.utils.create_time_series(
- sampling_frequency=sampling_frequency, duration=duration
- )
- time_domain_strain = np.random.normal(
- 0, duration - 1 / sampling_frequency, len(time_array)
- )
- self.ifosd.roll_off = 0
- self.ifosd.set_from_time_domain_strain(
- time_domain_strain=time_domain_strain,
- duration=duration,
- sampling_frequency=sampling_frequency,
- )
-
- frequency_domain_strain, freqs = bilby.core.utils.nfft(
- time_domain_strain, sampling_frequency
- )
-
- self.assertTrue(
- np.all(
- self.ifosd.frequency_domain_strain
- == frequency_domain_strain * self.ifosd.frequency_mask
- )
- )
-
- def test_time_within_data_before(self):
- self.ifosd.start_time = 3
- self.ifosd.duration = 2
- self.assertFalse(self.ifosd.time_within_data(2))
-
- def test_time_within_data_during(self):
- self.ifosd.start_time = 3
- self.ifosd.duration = 2
- self.assertTrue(self.ifosd.time_within_data(3))
- self.assertTrue(self.ifosd.time_within_data(4))
- self.assertTrue(self.ifosd.time_within_data(5))
-
- def test_time_within_data_after(self):
- self.ifosd.start_time = 3
- self.ifosd.duration = 2
- self.assertFalse(self.ifosd.time_within_data(6))
-
- def test_time_domain_window_no_roll_off_no_alpha(self):
- self.ifosd._time_domain_strain = np.array([3])
- self.ifosd.duration = 5
- self.ifosd.roll_off = 2
- expected_window = scipy.signal.windows.tukey(
- len(self.ifosd._time_domain_strain), alpha=self.ifosd.alpha
- )
- self.assertEqual(expected_window, self.ifosd.time_domain_window())
- self.assertEqual(np.mean(expected_window ** 2), self.ifosd.window_factor)
-
- def test_time_domain_window_sets_roll_off_directly(self):
- self.ifosd._time_domain_strain = np.array([3])
- self.ifosd.duration = 5
- self.ifosd.roll_off = 2
- expected_roll_off = 6
- self.ifosd.time_domain_window(roll_off=expected_roll_off)
- self.assertEqual(expected_roll_off, self.ifosd.roll_off)
-
- def test_time_domain_window_sets_roll_off_indirectly(self):
- self.ifosd._time_domain_strain = np.array([3])
- self.ifosd.duration = 5
- self.ifosd.roll_off = 2
- alpha = 4
- expected_roll_off = alpha * self.ifosd.duration / 2
- self.ifosd.time_domain_window(alpha=alpha)
- self.assertEqual(expected_roll_off, self.ifosd.roll_off)
-
- def test_time_domain_strain_when_set(self):
- expected_strain = 5
- self.ifosd._time_domain_strain = expected_strain
- self.assertEqual(expected_strain, self.ifosd.time_domain_strain)
-
- @patch("bilby.core.utils.infft")
- def test_time_domain_strain_from_frequency_domain_strain(self, m):
- m.return_value = 5
- self.ifosd.sampling_frequency = 200
- self.ifosd.duration = 4
- self.ifosd.sampling_frequency = 123
- self.ifosd.frequency_domain_strain = self.ifosd.frequency_array
- self.assertEqual(m.return_value, self.ifosd.time_domain_strain)
-
- def test_time_domain_strain_not_set(self):
- self.ifosd._time_domain_strain = None
- self.ifosd._frequency_domain_strain = None
- with self.assertRaises(ValueError):
- _ = self.ifosd.time_domain_strain
-
- def test_frequency_domain_strain_when_set(self):
- self.ifosd.sampling_frequency = 200
- self.ifosd.duration = 4
- expected_strain = self.ifosd.frequency_array * self.ifosd.frequency_mask
- self.ifosd._frequency_domain_strain = expected_strain
- self.assertTrue(
- np.array_equal(expected_strain, self.ifosd.frequency_domain_strain)
- )
-
- @patch("bilby.core.utils.nfft")
- def test_frequency_domain_strain_from_frequency_domain_strain(self, m):
- self.ifosd.start_time = 0
- self.ifosd.duration = 4
- self.ifosd.sampling_frequency = 200
- m.return_value = self.ifosd.frequency_array, self.ifosd.frequency_array
- self.ifosd._time_domain_strain = self.ifosd.time_array
- self.assertTrue(
- np.array_equal(
- self.ifosd.frequency_array * self.ifosd.frequency_mask,
- self.ifosd.frequency_domain_strain,
- )
- )
-
- def test_frequency_domain_strain_not_set(self):
- self.ifosd._time_domain_strain = None
- self.ifosd._frequency_domain_strain = None
- with self.assertRaises(ValueError):
- _ = self.ifosd.frequency_domain_strain
-
- def test_set_frequency_domain_strain(self):
- self.ifosd.duration = 4
- self.ifosd.sampling_frequency = 200
- self.ifosd.frequency_domain_strain = np.ones(len(self.ifosd.frequency_array))
- self.assertTrue(
- np.array_equal(
- np.ones(len(self.ifosd.frequency_array)),
- self.ifosd._frequency_domain_strain,
- )
- )
-
- def test_set_frequency_domain_strain_wrong_length(self):
- self.ifosd.duration = 4
- self.ifosd.sampling_frequency = 200
- with self.assertRaises(ValueError):
- self.ifosd.frequency_domain_strain = np.array([1])
-
-
-class TestInterferometerStrainDataEquals(unittest.TestCase):
- def setUp(self):
- self.minimum_frequency = 10
- self.maximum_frequency = 20
- self.roll_off = 0.2
- self.sampling_frequency = 100
- self.duration = 2
- self.frequency_array = bilby.utils.create_frequency_series(
- sampling_frequency=self.sampling_frequency, duration=self.duration
- )
- self.strain = self.frequency_array
- self.ifosd_1 = bilby.gw.detector.InterferometerStrainData(
- minimum_frequency=self.minimum_frequency,
- maximum_frequency=self.maximum_frequency,
- roll_off=self.roll_off,
- )
- self.ifosd_2 = bilby.gw.detector.InterferometerStrainData(
- minimum_frequency=self.minimum_frequency,
- maximum_frequency=self.maximum_frequency,
- roll_off=self.roll_off,
- )
- self.ifosd_1.set_from_frequency_domain_strain(
- frequency_domain_strain=self.strain, frequency_array=self.frequency_array
- )
- self.ifosd_2.set_from_frequency_domain_strain(
- frequency_domain_strain=self.strain, frequency_array=self.frequency_array
- )
-
- def tearDown(self):
- del self.minimum_frequency
- del self.maximum_frequency
- del self.roll_off
- del self.sampling_frequency
- del self.duration
- del self.frequency_array
- del self.strain
- del self.ifosd_1
- del self.ifosd_2
-
- def test_eq_true(self):
- self.assertEqual(self.ifosd_1, self.ifosd_2)
-
- def test_eq_different_minimum_frequency(self):
- self.ifosd_1.minimum_frequency -= 1
- self.assertNotEqual(self.ifosd_1, self.ifosd_2)
-
- def test_eq_different_maximum_frequency(self):
- self.ifosd_1.maximum_frequency -= 1
- self.assertNotEqual(self.ifosd_1, self.ifosd_2)
-
- def test_eq_different_roll_off(self):
- self.ifosd_1.roll_off -= 0.1
- self.assertNotEqual(self.ifosd_1, self.ifosd_2)
-
- def test_eq_different_window_factor(self):
- self.ifosd_1.roll_off -= 0.1
- self.assertNotEqual(self.ifosd_1, self.ifosd_2)
-
- def test_eq_different_sampling_frequency(self):
- self.ifosd_1.sampling_frequency *= 2
- self.assertNotEqual(self.ifosd_1, self.ifosd_2)
-
- def test_eq_different_sampling_duration(self):
- self.ifosd_1.duration *= 2
- self.assertNotEqual(self.ifosd_1, self.ifosd_2)
-
- def test_eq_different_start_time(self):
- self.ifosd_1.start_time -= 0.1
- self.assertNotEqual(self.ifosd_1, self.ifosd_2)
-
- def test_eq_different_frequency_array(self):
- new_frequency_array = bilby.utils.create_frequency_series(
- sampling_frequency=self.sampling_frequency / 2, duration=self.duration * 2
- )
- self.ifosd_1.frequency_array = new_frequency_array
- self.assertNotEqual(self.ifosd_1, self.ifosd_2)
-
- def test_eq_different_frequency_domain_strain(self):
- new_strain = bilby.utils.create_frequency_series(
- sampling_frequency=self.sampling_frequency / 2, duration=self.duration * 2
- )
- self.ifosd_1._frequency_domain_strain = new_strain
- self.assertNotEqual(self.ifosd_1, self.ifosd_2)
-
- def test_eq_different_time_array(self):
- new_time_array = bilby.utils.create_time_series(
- sampling_frequency=self.sampling_frequency / 2, duration=self.duration * 2
- )
- self.ifosd_1.time_array = new_time_array
- self.assertNotEqual(self.ifosd_1, self.ifosd_2)
-
- def test_eq_different_time_domain_strain(self):
- new_strain = bilby.utils.create_time_series(
- sampling_frequency=self.sampling_frequency / 2, duration=self.duration * 2
- )
- self.ifosd_1._time_domain_strain = new_strain
- self.assertNotEqual(self.ifosd_1, self.ifosd_2)
-
-
-class TestInterferometerList(unittest.TestCase):
- def setUp(self):
- self.frequency_arrays = np.linspace(0, 4096, 4097)
- self.name1 = "name1"
- self.name2 = "name2"
- self.power_spectral_density1 = (
- bilby.gw.detector.PowerSpectralDensity.from_aligo()
- )
- self.power_spectral_density2 = (
- bilby.gw.detector.PowerSpectralDensity.from_aligo()
- )
- self.minimum_frequency1 = 10
- self.minimum_frequency2 = 10
- self.maximum_frequency1 = 20
- self.maximum_frequency2 = 20
- self.length1 = 30
- self.length2 = 30
- self.latitude1 = 1
- self.latitude2 = 1
- self.longitude1 = 2
- self.longitude2 = 2
- self.elevation1 = 3
- self.elevation2 = 3
- self.xarm_azimuth1 = 4
- self.xarm_azimuth2 = 4
- self.yarm_azimuth1 = 5
- self.yarm_azimuth2 = 5
- self.xarm_tilt1 = 0.0
- self.xarm_tilt2 = 0.0
- self.yarm_tilt1 = 0.0
- self.yarm_tilt2 = 0.0
- # noinspection PyTypeChecker
- self.ifo1 = bilby.gw.detector.Interferometer(
- name=self.name1,
- power_spectral_density=self.power_spectral_density1,
- minimum_frequency=self.minimum_frequency1,
- maximum_frequency=self.maximum_frequency1,
- length=self.length1,
- latitude=self.latitude1,
- longitude=self.longitude1,
- elevation=self.elevation1,
- xarm_azimuth=self.xarm_azimuth1,
- yarm_azimuth=self.yarm_azimuth1,
- xarm_tilt=self.xarm_tilt1,
- yarm_tilt=self.yarm_tilt1,
- )
- self.ifo2 = bilby.gw.detector.Interferometer(
- name=self.name2,
- power_spectral_density=self.power_spectral_density2,
- minimum_frequency=self.minimum_frequency2,
- maximum_frequency=self.maximum_frequency2,
- length=self.length2,
- latitude=self.latitude2,
- longitude=self.longitude2,
- elevation=self.elevation2,
- xarm_azimuth=self.xarm_azimuth2,
- yarm_azimuth=self.yarm_azimuth2,
- xarm_tilt=self.xarm_tilt2,
- yarm_tilt=self.yarm_tilt2,
- )
- self.ifo1.strain_data.set_from_frequency_domain_strain(
- self.frequency_arrays, sampling_frequency=4096, duration=2
- )
- self.ifo2.strain_data.set_from_frequency_domain_strain(
- self.frequency_arrays, sampling_frequency=4096, duration=2
- )
- self.ifo_list = bilby.gw.detector.InterferometerList([self.ifo1, self.ifo2])
- self.outdir = "outdir"
- bilby.core.utils.check_directory_exists_and_if_not_mkdir(self.outdir)
-
- def tearDown(self):
- del self.frequency_arrays
- del self.name1
- del self.name2
- del self.power_spectral_density1
- del self.power_spectral_density2
- del self.minimum_frequency1
- del self.minimum_frequency2
- del self.maximum_frequency1
- del self.maximum_frequency2
- del self.length1
- del self.length2
- del self.latitude1
- del self.latitude2
- del self.longitude1
- del self.longitude2
- del self.elevation1
- del self.elevation2
- del self.xarm_azimuth1
- del self.xarm_azimuth2
- del self.yarm_azimuth1
- del self.yarm_azimuth2
- del self.xarm_tilt1
- del self.xarm_tilt2
- del self.yarm_tilt1
- del self.yarm_tilt2
- del self.ifo1
- del self.ifo2
- del self.ifo_list
- rmtree(self.outdir)
-
- def test_init_with_string(self):
- with self.assertRaises(TypeError):
- bilby.gw.detector.InterferometerList("string")
-
- def test_init_with_string_list(self):
- """ Merely checks if this ends up in the right bracket """
- with mock.patch("bilby.gw.detector.networks.get_empty_interferometer") as m:
- m.side_effect = TypeError
- with self.assertRaises(TypeError):
- bilby.gw.detector.InterferometerList(["string"])
-
- def test_init_with_other_object(self):
- with self.assertRaises(TypeError):
- bilby.gw.detector.InterferometerList([object()])
-
- def test_init_with_actual_ifos(self):
- ifo_list = bilby.gw.detector.InterferometerList([self.ifo1, self.ifo2])
- self.assertEqual(self.ifo1, ifo_list[0])
- self.assertEqual(self.ifo2, ifo_list[1])
-
- def test_init_inconsistent_duration(self):
- self.frequency_arrays = np.linspace(0, 2048, 2049)
- self.ifo2 = bilby.gw.detector.Interferometer(
- name=self.name2,
- power_spectral_density=self.power_spectral_density2,
- minimum_frequency=self.minimum_frequency2,
- maximum_frequency=self.maximum_frequency2,
- length=self.length2,
- latitude=self.latitude2,
- longitude=self.longitude2,
- elevation=self.elevation2,
- xarm_azimuth=self.xarm_azimuth2,
- yarm_azimuth=self.yarm_azimuth2,
- xarm_tilt=self.xarm_tilt2,
- yarm_tilt=self.yarm_tilt2,
- )
- self.ifo2.strain_data.set_from_frequency_domain_strain(
- self.frequency_arrays, sampling_frequency=4096, duration=1
- )
- with self.assertRaises(ValueError):
- bilby.gw.detector.InterferometerList([self.ifo1, self.ifo2])
-
- def test_init_inconsistent_sampling_frequency(self):
- self.frequency_arrays = np.linspace(0, 2048, 2049)
- self.ifo2 = bilby.gw.detector.Interferometer(
- name=self.name2,
- power_spectral_density=self.power_spectral_density2,
- minimum_frequency=self.minimum_frequency2,
- maximum_frequency=self.maximum_frequency2,
- length=self.length2,
- latitude=self.latitude2,
- longitude=self.longitude2,
- elevation=self.elevation2,
- xarm_azimuth=self.xarm_azimuth2,
- yarm_azimuth=self.yarm_azimuth2,
- xarm_tilt=self.xarm_tilt2,
- yarm_tilt=self.yarm_tilt2,
- )
- self.ifo2.strain_data.set_from_frequency_domain_strain(
- self.frequency_arrays, sampling_frequency=2048, duration=2
- )
- with self.assertRaises(ValueError):
- bilby.gw.detector.InterferometerList([self.ifo1, self.ifo2])
-
- def test_init_inconsistent_start_time(self):
- self.ifo2.strain_data.start_time = 1
- with self.assertRaises(ValueError):
- bilby.gw.detector.InterferometerList([self.ifo1, self.ifo2])
-
- @patch.object(bilby.gw.detector.networks.logger, "warning")
- def test_check_interferometers_relative_tolerance(self, mock_warning):
- # Value larger than relative tolerance -- not tolerated
- self.ifo2.strain_data.start_time = self.ifo1.strain_data.start_time + 1e-4
- with self.assertRaises(ValueError):
- bilby.gw.detector.InterferometerList([self.ifo1, self.ifo2])
-
- # Value smaller than relative tolerance -- tolerated with warning
- self.ifo2.strain_data.start_time = self.ifo1.strain_data.start_time + 1e-6
- ifo_list = bilby.gw.detector.InterferometerList([self.ifo1, self.ifo2])
- self.assertIsNotNone(ifo_list)
- self.assertTrue(mock_warning.called)
- warning_log_str = mock_warning.call_args.args[0].args[0]
- self.assertIsInstance(warning_log_str, str)
- self.assertTrue(
- "The start_time of all interferometers are not the same:" in warning_log_str
- )
-
- @patch.object(
- bilby.gw.detector.Interferometer, "set_strain_data_from_power_spectral_density"
- )
- def test_set_strain_data_from_power_spectral_density(self, m):
- self.ifo_list.set_strain_data_from_power_spectral_densities(
- sampling_frequency=123, duration=6.2, start_time=3
- )
- m.assert_called_with(sampling_frequency=123, duration=6.2, start_time=3)
- self.assertEqual(len(self.ifo_list), m.call_count)
-
- def test_inject_signal_pol_and_wg_none(self):
- with self.assertRaises(ValueError):
- self.ifo_list.inject_signal(
- injection_polarizations=None, waveform_generator=None
- )
-
- def test_meta_data(self):
- ifos_list = [self.ifo1, self.ifo2]
- ifos = bilby.gw.detector.InterferometerList(ifos_list)
- self.assertTrue(isinstance(ifos.meta_data, dict))
- meta_data = {ifo.name: ifo.meta_data for ifo in ifos_list}
- self.assertEqual(ifos.meta_data, meta_data)
-
- @patch.object(
- bilby.gw.waveform_generator.WaveformGenerator, "frequency_domain_strain"
- )
- def test_inject_signal_pol_none_calls_frequency_domain_strain(self, m):
- waveform_generator = bilby.gw.waveform_generator.WaveformGenerator(
- frequency_domain_source_model=lambda x, y, z: x
- )
- self.ifo1.inject_signal = MagicMock(return_value=None)
- self.ifo2.inject_signal = MagicMock(return_value=None)
- self.ifo_list.inject_signal(
- parameters=None, waveform_generator=waveform_generator
- )
- self.assertTrue(m.called)
-
- @patch.object(bilby.gw.detector.Interferometer, "inject_signal")
- def test_inject_signal_with_inj_pol(self, m):
- self.ifo_list.inject_signal(injection_polarizations=dict(plus=1))
- m.assert_called_with(parameters=None, injection_polarizations=dict(plus=1))
- self.assertEqual(len(self.ifo_list), m.call_count)
-
- @patch.object(bilby.gw.detector.Interferometer, "inject_signal")
- def test_inject_signal_returns_expected_polarisations(self, m):
- m.return_value = dict(plus=1, cross=2)
- injection_polarizations = dict(plus=1, cross=2)
- ifos_pol = self.ifo_list.inject_signal(
- injection_polarizations=injection_polarizations
- )
- self.assertDictEqual(
- self.ifo1.inject_signal(injection_polarizations=injection_polarizations),
- ifos_pol[0],
- )
- self.assertDictEqual(
- self.ifo2.inject_signal(injection_polarizations=injection_polarizations),
- ifos_pol[1],
- )
-
- @patch.object(bilby.gw.detector.Interferometer, "save_data")
- def test_save_data(self, m):
- self.ifo_list.save_data(outdir="test_outdir", label="test_outdir")
- m.assert_called_with(outdir="test_outdir", label="test_outdir")
- self.assertEqual(len(self.ifo_list), m.call_count)
-
- def test_number_of_interferometers(self):
- self.assertEqual(len(self.ifo_list), self.ifo_list.number_of_interferometers)
-
- def test_duration(self):
- self.assertEqual(self.ifo1.strain_data.duration, self.ifo_list.duration)
- self.assertEqual(self.ifo2.strain_data.duration, self.ifo_list.duration)
-
- def test_sampling_frequency(self):
- self.assertEqual(
- self.ifo1.strain_data.sampling_frequency, self.ifo_list.sampling_frequency
- )
- self.assertEqual(
- self.ifo2.strain_data.sampling_frequency, self.ifo_list.sampling_frequency
- )
-
- def test_start_time(self):
- self.assertEqual(self.ifo1.strain_data.start_time, self.ifo_list.start_time)
- self.assertEqual(self.ifo2.strain_data.start_time, self.ifo_list.start_time)
-
- def test_frequency_array(self):
- self.assertTrue(
- np.array_equal(
- self.ifo1.strain_data.frequency_array, self.ifo_list.frequency_array
- )
- )
- self.assertTrue(
- np.array_equal(
- self.ifo2.strain_data.frequency_array, self.ifo_list.frequency_array
- )
- )
-
- def test_append_with_ifo(self):
- self.ifo_list.append(self.ifo2)
- names = [ifo.name for ifo in self.ifo_list]
- self.assertListEqual([self.ifo1.name, self.ifo2.name, self.ifo2.name], names)
-
- def test_append_with_ifo_list(self):
- self.ifo_list.append(self.ifo_list)
- names = [ifo.name for ifo in self.ifo_list]
- self.assertListEqual(
- [self.ifo1.name, self.ifo2.name, self.ifo1.name, self.ifo2.name], names
- )
-
- def test_extend(self):
- self.ifo_list.extend(self.ifo_list)
- names = [ifo.name for ifo in self.ifo_list]
- self.assertListEqual(
- [self.ifo1.name, self.ifo2.name, self.ifo1.name, self.ifo2.name], names
- )
-
- def test_insert(self):
- new_ifo = self.ifo1
- new_ifo.name = "name3"
- self.ifo_list.insert(1, new_ifo)
- names = [ifo.name for ifo in self.ifo_list]
- self.assertListEqual([self.ifo1.name, new_ifo.name, self.ifo2.name], names)
-
- def test_to_and_from_hdf5_loading(self):
- if sys.version_info[0] < 3:
- with self.assertRaises(NotImplementedError):
- self.ifo_list.to_hdf5(outdir="outdir", label="test")
- else:
- self.ifo_list.to_hdf5(outdir="outdir", label="test")
- filename = "outdir/test_name1name2.h5"
- recovered_ifo = bilby.gw.detector.InterferometerList.from_hdf5(filename)
- self.assertListEqual(self.ifo_list, recovered_ifo)
-
- def test_to_and_from_hdf5_wrong_class(self):
- if sys.version_info[0] < 3:
- pass
- else:
- dd.io.save("./outdir/psd.h5", self.ifo_list[0].power_spectral_density)
- filename = self.ifo_list._hdf5_filename_from_outdir_label(
- outdir="outdir", label="psd"
- )
- with self.assertRaises(TypeError):
- bilby.gw.detector.InterferometerList.from_hdf5(filename)
-
- def test_plot_data(self):
- ifos = bilby.gw.detector.InterferometerList(["H1", "L1"])
- ifos.set_strain_data_from_power_spectral_densities(2048, 4)
- ifos.plot_data(outdir=self.outdir)
-
- ifos = bilby.gw.detector.InterferometerList(["H1", "L1", "V1"])
- ifos.set_strain_data_from_power_spectral_densities(2048, 4)
- ifos.plot_data(outdir=self.outdir)
-
-
-class TestPowerSpectralDensityWithoutFiles(unittest.TestCase):
- def setUp(self):
- self.frequency_array = np.array([1.0, 2.0, 3.0])
- self.psd_array = np.array([16.0, 25.0, 36.0])
- self.asd_array = np.array([4.0, 5.0, 6.0])
-
- def tearDown(self):
- del self.frequency_array
- del self.psd_array
- del self.asd_array
-
- def test_init_with_asd_array(self):
- psd = bilby.gw.detector.PowerSpectralDensity(
- frequency_array=self.frequency_array, asd_array=self.asd_array
- )
- self.assertTrue(np.array_equal(self.frequency_array, psd.frequency_array))
- self.assertTrue(np.array_equal(self.asd_array, psd.asd_array))
- self.assertTrue(np.array_equal(self.psd_array, psd.psd_array))
-
- def test_init_with_psd_array(self):
- psd = bilby.gw.detector.PowerSpectralDensity(
- frequency_array=self.frequency_array, psd_array=self.psd_array
- )
- self.assertTrue(np.array_equal(self.frequency_array, psd.frequency_array))
- self.assertTrue(np.array_equal(self.asd_array, psd.asd_array))
- self.assertTrue(np.array_equal(self.psd_array, psd.psd_array))
-
- def test_setting_asd_array_after_init(self):
- psd = bilby.gw.detector.PowerSpectralDensity(
- frequency_array=self.frequency_array
- )
- psd.asd_array = self.asd_array
- self.assertTrue(np.array_equal(self.frequency_array, psd.frequency_array))
- self.assertTrue(np.array_equal(self.asd_array, psd.asd_array))
- self.assertTrue(np.array_equal(self.psd_array, psd.psd_array))
-
- def test_setting_psd_array_after_init(self):
- psd = bilby.gw.detector.PowerSpectralDensity(
- frequency_array=self.frequency_array
- )
- psd.psd_array = self.psd_array
- self.assertTrue(np.array_equal(self.frequency_array, psd.frequency_array))
- self.assertTrue(np.array_equal(self.asd_array, psd.asd_array))
- self.assertTrue(np.array_equal(self.psd_array, psd.psd_array))
-
- def test_power_spectral_density_interpolated_from_asd_array(self):
- expected = np.array([25.0])
- psd = bilby.gw.detector.PowerSpectralDensity(
- frequency_array=self.frequency_array, asd_array=self.asd_array
- )
- self.assertEqual(expected, psd.power_spectral_density_interpolated(2))
-
- def test_power_spectral_density_interpolated_from_psd_array(self):
- expected = np.array([25.0])
- psd = bilby.gw.detector.PowerSpectralDensity(
- frequency_array=self.frequency_array, psd_array=self.psd_array
- )
- self.assertEqual(expected, psd.power_spectral_density_interpolated(2))
-
- def test_from_amplitude_spectral_density_array(self):
- actual = bilby.gw.detector.PowerSpectralDensity.from_amplitude_spectral_density_array(
- frequency_array=self.frequency_array, asd_array=self.asd_array
- )
- self.assertTrue(np.array_equal(self.psd_array, actual.psd_array))
- self.assertTrue(np.array_equal(self.asd_array, actual.asd_array))
-
- def test_from_power_spectral_density_array(self):
- actual = bilby.gw.detector.PowerSpectralDensity.from_power_spectral_density_array(
- frequency_array=self.frequency_array, psd_array=self.psd_array
- )
- self.assertTrue(np.array_equal(self.psd_array, actual.psd_array))
- self.assertTrue(np.array_equal(self.asd_array, actual.asd_array))
-
- def test_repr(self):
- psd = bilby.gw.detector.PowerSpectralDensity(
- frequency_array=self.frequency_array, psd_array=self.psd_array
- )
- expected = "PowerSpectralDensity(frequency_array={}, psd_array={}, asd_array={})".format(
- self.frequency_array, self.psd_array, self.asd_array
- )
- self.assertEqual(expected, repr(psd))
-
-
-class TestPowerSpectralDensityWithFiles(unittest.TestCase):
- def setUp(self):
- self.dir = os.path.join(os.path.dirname(__file__), "noise_curves")
- os.mkdir(self.dir)
- self.asd_file = os.path.join(
- os.path.dirname(__file__), "noise_curves", "asd_test_file.txt"
- )
- self.psd_file = os.path.join(
- os.path.dirname(__file__), "noise_curves", "psd_test_file.txt"
- )
- with open(self.asd_file, "w") as f:
- f.write("1.\t1.0e-21\n2.\t2.0e-21\n3.\t3.0e-21")
- with open(self.psd_file, "w") as f:
- f.write("1.\t1.0e-42\n2.\t4.0e-42\n3.\t9.0e-42")
- self.frequency_array = np.array([1.0, 2.0, 3.0])
- self.asd_array = np.array([1.0e-21, 2.0e-21, 3.0e-21])
- self.psd_array = np.array([1.0e-42, 4.0e-42, 9.0e-42])
-
- def tearDown(self):
- os.remove(self.asd_file)
- os.remove(self.psd_file)
- os.rmdir(self.dir)
- del self.dir
- del self.asd_array
- del self.psd_array
- del self.asd_file
- del self.psd_file
-
- def test_init_with_psd_file(self):
- psd = bilby.gw.detector.PowerSpectralDensity(
- frequency_array=self.frequency_array, psd_file=self.psd_file
- )
- self.assertEqual(self.psd_file, psd.psd_file)
- self.assertTrue(np.array_equal(self.psd_array, psd.psd_array))
- self.assertTrue(np.allclose(self.asd_array, psd.asd_array, atol=1e-30))
-
- def test_init_with_asd_file(self):
- psd = bilby.gw.detector.PowerSpectralDensity(
- frequency_array=self.frequency_array, asd_file=self.asd_file
- )
- self.assertEqual(self.asd_file, psd.asd_file)
- self.assertTrue(np.allclose(self.psd_array, psd.psd_array, atol=1e-60))
- self.assertTrue(np.array_equal(self.asd_array, psd.asd_array))
-
- def test_setting_psd_array_after_init(self):
- psd = bilby.gw.detector.PowerSpectralDensity(
- frequency_array=self.frequency_array
- )
- psd.psd_file = self.psd_file
- self.assertEqual(self.psd_file, psd.psd_file)
- self.assertTrue(np.array_equal(self.psd_array, psd.psd_array))
- self.assertTrue(np.allclose(self.asd_array, psd.asd_array, atol=1e-30))
-
- def test_init_with_asd_array_after_init(self):
- psd = bilby.gw.detector.PowerSpectralDensity(
- frequency_array=self.frequency_array
- )
- psd.asd_file = self.asd_file
- self.assertEqual(self.asd_file, psd.asd_file)
- self.assertTrue(np.allclose(self.psd_array, psd.psd_array, atol=1e-60))
- self.assertTrue(np.array_equal(self.asd_array, psd.asd_array))
-
- def test_power_spectral_density_interpolated_from_asd_file(self):
- expected = np.array([4.0e-42])
- psd = bilby.gw.detector.PowerSpectralDensity(
- frequency_array=self.frequency_array, asd_file=self.asd_file
- )
- self.assertTrue(
- np.allclose(
- expected, psd.power_spectral_density_interpolated(2), atol=1e-60
- )
- )
-
- def test_power_spectral_density_interpolated_from_psd_file(self):
- expected = np.array([4.0e-42])
- psd = bilby.gw.detector.PowerSpectralDensity(
- frequency_array=self.frequency_array, psd_file=self.psd_file
- )
- self.assertAlmostEqual(expected, psd.power_spectral_density_interpolated(2))
-
- def test_from_amplitude_spectral_density_file(self):
- psd = bilby.gw.detector.PowerSpectralDensity.from_amplitude_spectral_density_file(
- asd_file=self.asd_file
- )
- self.assertEqual(self.asd_file, psd.asd_file)
- self.assertTrue(np.allclose(self.psd_array, psd.psd_array, atol=1e-60))
- self.assertTrue(np.array_equal(self.asd_array, psd.asd_array))
-
- def test_from_power_spectral_density_file(self):
- psd = bilby.gw.detector.PowerSpectralDensity.from_power_spectral_density_file(
- psd_file=self.psd_file
- )
- self.assertEqual(self.psd_file, psd.psd_file)
- self.assertTrue(np.array_equal(self.psd_array, psd.psd_array))
- self.assertTrue(np.allclose(self.asd_array, psd.asd_array, atol=1e-30))
-
- def test_from_aligo(self):
- psd = bilby.gw.detector.PowerSpectralDensity.from_aligo()
- expected_filename = "aLIGO_ZERO_DET_high_P_psd.txt"
- expected = bilby.gw.detector.PowerSpectralDensity(psd_file=expected_filename)
- actual_filename = psd.psd_file.split("/")[-1]
- self.assertEqual(expected_filename, actual_filename)
- self.assertTrue(np.allclose(expected.psd_array, psd.psd_array, atol=1e-60))
- self.assertTrue(np.array_equal(expected.asd_array, psd.asd_array))
-
- def test_check_file_psd_file_set_to_asd_file(self):
- logger = logging.getLogger("bilby")
- m = MagicMock()
- logger.warning = m
- _ = bilby.gw.detector.PowerSpectralDensity(psd_file=self.asd_file)
- self.assertEqual(4, m.call_count)
-
- def test_check_file_not_called_psd_file_set_to_psd_file(self):
- logger = logging.getLogger("bilby")
- m = MagicMock()
- logger.warning = m
- _ = bilby.gw.detector.PowerSpectralDensity(psd_file=self.psd_file)
- self.assertEqual(0, m.call_count)
-
- def test_check_file_asd_file_set_to_psd_file(self):
- logger = logging.getLogger("bilby")
- m = MagicMock()
- logger.warning = m
- _ = bilby.gw.detector.PowerSpectralDensity(asd_file=self.psd_file)
- self.assertEqual(4, m.call_count)
-
- def test_check_file_not_called_asd_file_set_to_asd_file(self):
- logger = logging.getLogger("bilby")
- m = MagicMock()
- logger.warning = m
- _ = bilby.gw.detector.PowerSpectralDensity(asd_file=self.asd_file)
- self.assertEqual(0, m.call_count)
-
- def test_from_frame_file(self):
- expected_frequency_array = np.array([1.0, 2.0, 3.0])
- expected_psd_array = np.array([16.0, 25.0, 36.0])
- with mock.patch(
- "bilby.gw.detector.InterferometerStrainData.set_from_frame_file"
- ) as _:
- with mock.patch(
- "bilby.gw.detector.InterferometerStrainData.create_power_spectral_density"
- ) as n:
- n.return_value = expected_frequency_array, expected_psd_array
- psd = bilby.gw.detector.PowerSpectralDensity.from_frame_file(
- frame_file=self.asd_file, psd_start_time=0, psd_duration=4
- )
- self.assertTrue(
- np.array_equal(expected_frequency_array, psd.frequency_array)
- )
- self.assertTrue(np.array_equal(expected_psd_array, psd.psd_array))
-
- def test_repr(self):
- psd = bilby.gw.detector.PowerSpectralDensity(psd_file=self.psd_file)
- expected = "PowerSpectralDensity(psd_file='{}', asd_file='{}')".format(
- self.psd_file, None
- )
- self.assertEqual(expected, repr(psd))
-
-
-class TestPowerSpectralDensityEquals(unittest.TestCase):
- def setUp(self):
- self.psd_from_file_1 = bilby.gw.detector.PowerSpectralDensity.from_aligo()
- self.psd_from_file_2 = bilby.gw.detector.PowerSpectralDensity.from_aligo()
- self.frequency_array = np.linspace(1, 100)
- self.psd_array = np.linspace(1, 100)
- self.psd_from_array_1 = bilby.gw.detector.PowerSpectralDensity.from_power_spectral_density_array(
- frequency_array=self.frequency_array, psd_array=self.psd_array
- )
- self.psd_from_array_2 = bilby.gw.detector.PowerSpectralDensity.from_power_spectral_density_array(
- frequency_array=self.frequency_array, psd_array=self.psd_array
- )
-
- def tearDown(self):
- del self.psd_from_file_1
- del self.psd_from_file_2
- del self.frequency_array
- del self.psd_array
- del self.psd_from_array_1
- del self.psd_from_array_2
-
- def test_eq_true_from_array(self):
- self.assertEqual(self.psd_from_array_1, self.psd_from_array_2)
-
- def test_eq_true_from_file(self):
- self.assertEqual(self.psd_from_file_1, self.psd_from_file_2)
-
- def test_eq_false_different_psd_file_name(self):
- self.psd_from_file_1._psd_file = "some_other_name"
- self.assertNotEqual(self.psd_from_file_1, self.psd_from_file_2)
-
- def test_eq_false_different_asd_file_name(self):
- self.psd_from_file_1._psd_file = None
- self.psd_from_file_2._psd_file = None
- self.psd_from_file_1._asd_file = "some_name"
- self.psd_from_file_2._asd_file = "some_other_name"
- self.assertNotEqual(self.psd_from_file_1, self.psd_from_file_2)
-
- def test_eq_false_different_frequency_array(self):
- self.psd_from_file_1.frequency_array[0] = 0.5
- self.psd_from_array_1.frequency_array[0] = 0.5
- self.assertNotEqual(self.psd_from_file_1, self.psd_from_file_2)
- self.assertNotEqual(self.psd_from_array_1, self.psd_from_array_2)
-
- def test_eq_false_different_psd(self):
- self.psd_from_file_1.psd_array[0] = 0.53544321
- self.psd_from_array_1.psd_array[0] = 0.53544321
- self.assertNotEqual(self.psd_from_file_1, self.psd_from_file_2)
- self.assertNotEqual(self.psd_from_array_1, self.psd_from_array_2)
-
- def test_eq_false_different_asd(self):
- self.psd_from_file_1.asd_array[0] = 0.53544321
- self.psd_from_array_1.asd_array[0] = 0.53544321
- self.assertNotEqual(self.psd_from_file_1, self.psd_from_file_2)
- self.assertNotEqual(self.psd_from_array_1, self.psd_from_array_2)
-
-
-if __name__ == "__main__":
- unittest.main()
diff --git a/test/gw/__init__.py b/test/gw/__init__.py
new file mode 100644
index 0000000000000000000000000000000000000000..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391
diff --git a/test/conversion_test.py b/test/gw/conversion_test.py
similarity index 100%
rename from test/conversion_test.py
rename to test/gw/conversion_test.py
diff --git a/test/cosmology_test.py b/test/gw/cosmology_test.py
similarity index 100%
rename from test/cosmology_test.py
rename to test/gw/cosmology_test.py
diff --git a/test/gw/detector/__init__.py b/test/gw/detector/__init__.py
new file mode 100644
index 0000000000000000000000000000000000000000..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391
diff --git a/test/calibration_test.py b/test/gw/detector/calibration_test.py
similarity index 100%
rename from test/calibration_test.py
rename to test/gw/detector/calibration_test.py
diff --git a/test/gw/detector/geometry_test.py b/test/gw/detector/geometry_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..b05b67459fc65abeb46ed32d6e0dea64d2e18bf8
--- /dev/null
+++ b/test/gw/detector/geometry_test.py
@@ -0,0 +1,236 @@
+import unittest
+
+import mock
+import numpy as np
+from mock import MagicMock
+
+import bilby
+
+
+class TestInterferometerGeometry(unittest.TestCase):
+ def setUp(self):
+ self.length = 30
+ self.latitude = 1
+ self.longitude = 2
+ self.elevation = 3
+ self.xarm_azimuth = 4
+ self.yarm_azimuth = 5
+ self.xarm_tilt = 0.0
+ self.yarm_tilt = 0.0
+ self.geometry = bilby.gw.detector.InterferometerGeometry(
+ length=self.length,
+ latitude=self.latitude,
+ longitude=self.longitude,
+ elevation=self.elevation,
+ xarm_azimuth=self.xarm_azimuth,
+ yarm_azimuth=self.yarm_azimuth,
+ xarm_tilt=self.xarm_tilt,
+ yarm_tilt=self.yarm_tilt,
+ )
+
+ def tearDown(self):
+ del self.length
+ del self.latitude
+ del self.longitude
+ del self.elevation
+ del self.xarm_azimuth
+ del self.yarm_azimuth
+ del self.xarm_tilt
+ del self.yarm_tilt
+ del self.geometry
+
+ def test_length_setting(self):
+ self.assertEqual(self.geometry.length, self.length)
+
+ def test_latitude_setting(self):
+ self.assertEqual(self.geometry.latitude, self.latitude)
+
+ def test_longitude_setting(self):
+ self.assertEqual(self.geometry.longitude, self.longitude)
+
+ def test_elevation_setting(self):
+ self.assertEqual(self.geometry.elevation, self.elevation)
+
+ def test_xarm_azi_setting(self):
+ self.assertEqual(self.geometry.xarm_azimuth, self.xarm_azimuth)
+
+ def test_yarm_azi_setting(self):
+ self.assertEqual(self.geometry.yarm_azimuth, self.yarm_azimuth)
+
+ def test_xarm_tilt_setting(self):
+ self.assertEqual(self.geometry.xarm_tilt, self.xarm_tilt)
+
+ def test_yarm_tilt_setting(self):
+ self.assertEqual(self.geometry.yarm_tilt, self.yarm_tilt)
+
+ def test_vertex_without_update(self):
+ _ = self.geometry.vertex
+ with mock.patch("bilby.gw.utils.get_vertex_position_geocentric") as m:
+ m.return_value = np.array([1])
+ self.assertFalse(np.array_equal(self.geometry.vertex, np.array([1])))
+
+ def test_vertex_with_latitude_update(self):
+ with mock.patch("bilby.gw.utils.get_vertex_position_geocentric") as m:
+ m.return_value = np.array([1])
+ self.geometry.latitude = 5
+ self.assertEqual(self.geometry.vertex, np.array([1]))
+
+ def test_vertex_with_longitude_update(self):
+ with mock.patch("bilby.gw.utils.get_vertex_position_geocentric") as m:
+ m.return_value = np.array([1])
+ self.geometry.longitude = 5
+ self.assertEqual(self.geometry.vertex, np.array([1]))
+
+ def test_vertex_with_elevation_update(self):
+ with mock.patch("bilby.gw.utils.get_vertex_position_geocentric") as m:
+ m.return_value = np.array([1])
+ self.geometry.elevation = 5
+ self.assertEqual(self.geometry.vertex, np.array([1]))
+
+ def test_x_without_update(self):
+ _ = self.geometry.x
+ self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
+
+ self.assertFalse(np.array_equal(self.geometry.x, np.array([1])))
+
+ def test_x_with_xarm_tilt_update(self):
+ self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
+ self.geometry.xarm_tilt = 0
+ self.assertTrue(np.array_equal(self.geometry.x, np.array([1])))
+
+ def test_x_with_xarm_azimuth_update(self):
+ self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
+ self.geometry.xarm_azimuth = 0
+ self.assertTrue(np.array_equal(self.geometry.x, np.array([1])))
+
+ def test_x_with_longitude_update(self):
+ self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
+ self.geometry.longitude = 0
+ self.assertTrue(np.array_equal(self.geometry.x, np.array([1])))
+
+ def test_x_with_latitude_update(self):
+ self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
+ self.geometry.latitude = 0
+ self.assertTrue(np.array_equal(self.geometry.x, np.array([1])))
+
+ def test_y_without_update(self):
+ _ = self.geometry.y
+ self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
+
+ self.assertFalse(np.array_equal(self.geometry.y, np.array([1])))
+
+ def test_y_with_yarm_tilt_update(self):
+ self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
+ self.geometry.yarm_tilt = 0
+ self.assertTrue(np.array_equal(self.geometry.y, np.array([1])))
+
+ def test_y_with_yarm_azimuth_update(self):
+ self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
+ self.geometry.yarm_azimuth = 0
+ self.assertTrue(np.array_equal(self.geometry.y, np.array([1])))
+
+ def test_y_with_longitude_update(self):
+ self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
+ self.geometry.longitude = 0
+ self.assertTrue(np.array_equal(self.geometry.y, np.array([1])))
+
+ def test_y_with_latitude_update(self):
+ self.geometry.unit_vector_along_arm = MagicMock(return_value=np.array([1]))
+ self.geometry.latitude = 0
+ self.assertTrue(np.array_equal(self.geometry.y, np.array([1])))
+
+ def test_detector_tensor_without_update(self):
+ _ = self.geometry.detector_tensor
+ with mock.patch("numpy.einsum") as m:
+ m.return_value = 1
+ expected = np.array(
+ [
+ [-9.24529394e-06, 1.02425803e-04, 3.24550668e-04],
+ [1.02425803e-04, 1.37390844e-03, -8.61137566e-03],
+ [3.24550668e-04, -8.61137566e-03, -1.36466315e-03],
+ ]
+ )
+ self.assertTrue(np.allclose(expected, self.geometry.detector_tensor))
+
+ def test_detector_tensor_with_x_azimuth_update(self):
+ _ = self.geometry.detector_tensor
+ with mock.patch("numpy.einsum") as m:
+ m.return_value = 1
+ self.geometry.xarm_azimuth = 1
+ self.assertEqual(0, self.geometry.detector_tensor)
+
+ def test_detector_tensor_with_y_azimuth_update(self):
+ _ = self.geometry.detector_tensor
+ with mock.patch("numpy.einsum") as m:
+ m.return_value = 1
+ self.geometry.yarm_azimuth = 1
+ self.assertEqual(0, self.geometry.detector_tensor)
+
+ def test_detector_tensor_with_x_tilt_update(self):
+ _ = self.geometry.detector_tensor
+ with mock.patch("numpy.einsum") as m:
+ m.return_value = 1
+ self.geometry.xarm_tilt = 1
+ self.assertEqual(0, self.geometry.detector_tensor)
+
+ def test_detector_tensor_with_y_tilt_update(self):
+ _ = self.geometry.detector_tensor
+ with mock.patch("numpy.einsum") as m:
+ m.return_value = 1
+ self.geometry.yarm_tilt = 1
+ self.assertEqual(0, self.geometry.detector_tensor)
+
+ def test_detector_tensor_with_longitude_update(self):
+ with mock.patch("numpy.einsum") as m:
+ m.return_value = 1
+ self.geometry.longitude = 1
+ self.assertEqual(0, self.geometry.detector_tensor)
+
+ def test_detector_tensor_with_latitude_update(self):
+ with mock.patch("numpy.einsum") as m:
+ _ = self.geometry.detector_tensor
+ m.return_value = 1
+ self.geometry.latitude = 1
+ self.assertEqual(self.geometry.detector_tensor, 0)
+
+ def test_unit_vector_along_arm_default(self):
+ with self.assertRaises(ValueError):
+ self.geometry.unit_vector_along_arm("z")
+
+ def test_unit_vector_along_arm_x(self):
+ with mock.patch("numpy.array") as m:
+ m.return_value = 1
+ self.geometry.xarm_tilt = 0
+ self.geometry.xarm_azimuth = 0
+ self.geometry.yarm_tilt = 0
+ self.geometry.yarm_azimuth = 90
+ self.assertAlmostEqual(self.geometry.unit_vector_along_arm("x"), 1)
+
+ def test_unit_vector_along_arm_y(self):
+ with mock.patch("numpy.array") as m:
+ m.return_value = 1
+ self.geometry.xarm_tilt = 0
+ self.geometry.xarm_azimuth = 90
+ self.geometry.yarm_tilt = 0
+ self.geometry.yarm_azimuth = 180
+ self.assertAlmostEqual(self.geometry.unit_vector_along_arm("y"), -1)
+
+ def test_repr(self):
+ expected = (
+ "InterferometerGeometry(length={}, latitude={}, longitude={}, elevation={}, xarm_azimuth={}, "
+ "yarm_azimuth={}, xarm_tilt={}, yarm_tilt={})".format(
+ float(self.length),
+ float(self.latitude),
+ float(self.longitude),
+ float(self.elevation),
+ float(self.xarm_azimuth),
+ float(self.yarm_azimuth),
+ float(self.xarm_tilt),
+ float(self.yarm_tilt),
+ )
+ )
+ self.assertEqual(expected, repr(self.geometry))
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/gw/detector/interferometer_test.py b/test/gw/detector/interferometer_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..0e5a51e032a6f3ce9ac11466b547eacbd596530a
--- /dev/null
+++ b/test/gw/detector/interferometer_test.py
@@ -0,0 +1,532 @@
+import sys
+import unittest
+from shutil import rmtree
+
+import deepdish as dd
+import mock
+import numpy as np
+from mock import MagicMock, patch
+
+import bilby
+
+
+class TestInterferometer(unittest.TestCase):
+ def setUp(self):
+ self.name = "name"
+ self.power_spectral_density = (
+ bilby.gw.detector.PowerSpectralDensity.from_aligo()
+ )
+ self.minimum_frequency = 10
+ self.maximum_frequency = 20
+ self.length = 30
+ self.latitude = 1
+ self.longitude = 2
+ self.elevation = 3
+ self.xarm_azimuth = 4
+ self.yarm_azimuth = 5
+ self.xarm_tilt = 0.0
+ self.yarm_tilt = 0.0
+ # noinspection PyTypeChecker
+ self.ifo = bilby.gw.detector.Interferometer(
+ name=self.name,
+ power_spectral_density=self.power_spectral_density,
+ minimum_frequency=self.minimum_frequency,
+ maximum_frequency=self.maximum_frequency,
+ length=self.length,
+ latitude=self.latitude,
+ longitude=self.longitude,
+ elevation=self.elevation,
+ xarm_azimuth=self.xarm_azimuth,
+ yarm_azimuth=self.yarm_azimuth,
+ xarm_tilt=self.xarm_tilt,
+ yarm_tilt=self.yarm_tilt,
+ )
+ self.ifo.strain_data.set_from_frequency_domain_strain(
+ np.linspace(0, 4096, 4097), sampling_frequency=4096, duration=2
+ )
+ self.outdir = "outdir"
+
+ self.injection_polarizations = dict()
+ np.random.seed(42)
+ self.injection_polarizations["plus"] = np.random.random(4097)
+ self.injection_polarizations["cross"] = np.random.random(4097)
+
+ self.waveform_generator = MagicMock()
+ self.wg_polarizations = dict(
+ plus=np.random.random(4097), cross=np.random.random(4097)
+ )
+ self.waveform_generator.frequency_domain_strain = (
+ lambda _: self.wg_polarizations
+ )
+ self.parameters = dict(ra=0.0, dec=0.0, geocent_time=0.0, psi=0.0)
+
+ bilby.core.utils.check_directory_exists_and_if_not_mkdir(self.outdir)
+
+ def tearDown(self):
+ del self.name
+ del self.power_spectral_density
+ del self.minimum_frequency
+ del self.maximum_frequency
+ del self.length
+ del self.latitude
+ del self.longitude
+ del self.elevation
+ del self.xarm_azimuth
+ del self.yarm_azimuth
+ del self.xarm_tilt
+ del self.yarm_tilt
+ del self.ifo
+ del self.injection_polarizations
+ del self.wg_polarizations
+ del self.waveform_generator
+ del self.parameters
+ rmtree(self.outdir)
+
+ def test_name_setting(self):
+ self.assertEqual(self.ifo.name, self.name)
+
+ def test_psd_setting(self):
+ self.assertEqual(self.ifo.power_spectral_density, self.power_spectral_density)
+
+ def test_min_freq_setting(self):
+ self.assertEqual(self.ifo.strain_data.minimum_frequency, self.minimum_frequency)
+
+ def test_max_freq_setting(self):
+ self.assertEqual(self.ifo.strain_data.maximum_frequency, self.maximum_frequency)
+
+ def test_antenna_response_default(self):
+ with mock.patch("bilby.gw.utils.get_polarization_tensor") as m:
+ with mock.patch("numpy.einsum") as n:
+ m.return_value = 0
+ n.return_value = 1
+ self.assertEqual(self.ifo.antenna_response(234, 52, 54, 76, "plus"), 1)
+
+ def test_antenna_response_einsum(self):
+ with mock.patch("bilby.gw.utils.get_polarization_tensor") as m:
+ m.return_value = np.ones((3, 3))
+ self.assertAlmostEqual(
+ self.ifo.antenna_response(234, 52, 54, 76, "plus"),
+ self.ifo.detector_tensor.sum(),
+ )
+
+ def test_get_detector_response_default_behaviour(self):
+ self.ifo.antenna_response = MagicMock(return_value=1)
+ self.ifo.time_delay_from_geocenter = MagicMock(return_value=0)
+ self.ifo.epoch = 0
+ self.minimum_frequency = 10
+ self.maximum_frequency = 20
+ # self.ifo.frequency_array = np.array([8, 12, 16, 20, 24])
+ plus = np.linspace(0, 4096, 4097)
+ response = self.ifo.get_detector_response(
+ waveform_polarizations=dict(plus=plus),
+ parameters=dict(ra=0, dec=0, geocent_time=0, psi=0),
+ )
+ self.assertTrue(
+ np.array_equal(response, plus * self.ifo.frequency_mask * np.exp(-0j))
+ )
+
+ def test_get_detector_response_with_dt(self):
+ self.ifo.antenna_response = MagicMock(return_value=1)
+ self.ifo.time_delay_from_geocenter = MagicMock(return_value=0)
+ self.ifo.epoch = 1
+ self.minimum_frequency = 10
+ self.maximum_frequency = 20
+ plus = np.linspace(0, 4096, 4097)
+ response = self.ifo.get_detector_response(
+ waveform_polarizations=dict(plus=plus),
+ parameters=dict(ra=0, dec=0, geocent_time=0, psi=0),
+ )
+ expected_response = (
+ plus
+ * self.ifo.frequency_mask
+ * np.exp(-1j * 2 * np.pi * self.ifo.frequency_array)
+ )
+ self.assertTrue(np.allclose(abs(expected_response), abs(response)))
+
+ def test_get_detector_response_multiple_modes(self):
+ self.ifo.antenna_response = MagicMock(return_value=1)
+ self.ifo.time_delay_from_geocenter = MagicMock(return_value=0)
+ self.ifo.epoch = 0
+ self.minimum_frequency = 10
+ self.maximum_frequency = 20
+ plus = np.linspace(0, 4096, 4097)
+ cross = np.linspace(0, 4096, 4097)
+ response = self.ifo.get_detector_response(
+ waveform_polarizations=dict(plus=plus, cross=cross),
+ parameters=dict(ra=0, dec=0, geocent_time=0, psi=0),
+ )
+ self.assertTrue(
+ np.array_equal(
+ response, (plus + cross) * self.ifo.frequency_mask * np.exp(-0j)
+ )
+ )
+
+ def test_inject_signal_from_waveform_polarizations_correct_injection(self):
+ original_strain = self.ifo.strain_data.frequency_domain_strain
+ self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
+ self.ifo.inject_signal_from_waveform_polarizations(
+ parameters=self.parameters,
+ injection_polarizations=self.injection_polarizations,
+ )
+ expected = (
+ self.injection_polarizations["plus"]
+ + self.injection_polarizations["cross"]
+ + original_strain
+ )
+ self.assertTrue(
+ np.array_equal(expected, self.ifo.strain_data._frequency_domain_strain)
+ )
+
+ def test_inject_signal_from_waveform_polarizations_update_time_domain_strain(self):
+ original_td_strain = self.ifo.strain_data.time_domain_strain
+ self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
+ self.ifo.inject_signal_from_waveform_polarizations(
+ parameters=self.parameters,
+ injection_polarizations=self.injection_polarizations,
+ )
+ self.assertFalse(
+ np.array_equal(original_td_strain, self.ifo.strain_data.time_domain_strain)
+ )
+
+ def test_inject_signal_from_waveform_polarizations_meta_data(self):
+ self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
+ self.ifo.inject_signal_from_waveform_polarizations(
+ parameters=self.parameters,
+ injection_polarizations=self.injection_polarizations,
+ )
+ signal_ifo_expected = (
+ self.injection_polarizations["plus"] + self.injection_polarizations["cross"]
+ )
+ self.assertAlmostEqual(
+ self.ifo.optimal_snr_squared(signal=signal_ifo_expected).real,
+ self.ifo.meta_data["optimal_SNR"] ** 2,
+ 10,
+ )
+ self.assertAlmostEqual(
+ self.ifo.matched_filter_snr(signal=signal_ifo_expected),
+ self.ifo.meta_data["matched_filter_SNR"],
+ 10,
+ )
+ self.assertDictEqual(self.parameters, self.ifo.meta_data["parameters"])
+
+ def test_inject_signal_from_waveform_polarizations_incorrect_length(self):
+ self.injection_polarizations["plus"] = np.random.random(1000)
+ self.injection_polarizations["cross"] = np.random.random(1000)
+ self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
+ with self.assertRaises(ValueError):
+ self.ifo.inject_signal_from_waveform_polarizations(
+ parameters=self.parameters,
+ injection_polarizations=self.injection_polarizations,
+ )
+
+ @patch.object(bilby.core.utils.logger, "warning")
+ def test_inject_signal_outside_segment_logs_warning(self, m):
+ self.parameters["geocent_time"] = 24345.0
+ self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
+ self.ifo.inject_signal_from_waveform_polarizations(
+ parameters=self.parameters,
+ injection_polarizations=self.injection_polarizations,
+ )
+ self.assertTrue(m.called)
+
+ def test_inject_signal_from_waveform_generator_correct_return_value(self):
+ self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
+ returned_polarizations = self.ifo.inject_signal_from_waveform_generator(
+ parameters=self.parameters, waveform_generator=self.waveform_generator
+ )
+ self.assertTrue(
+ np.array_equal(
+ self.wg_polarizations["plus"], returned_polarizations["plus"]
+ )
+ )
+ self.assertTrue(
+ np.array_equal(
+ self.wg_polarizations["cross"], returned_polarizations["cross"]
+ )
+ )
+
+ @patch.object(
+ bilby.gw.detector.Interferometer, "inject_signal_from_waveform_generator"
+ )
+ def test_inject_signal_with_waveform_generator_correct_call(self, m):
+ self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
+ _ = self.ifo.inject_signal(
+ parameters=self.parameters, waveform_generator=self.waveform_generator
+ )
+ m.assert_called_with(
+ parameters=self.parameters, waveform_generator=self.waveform_generator
+ )
+
+ def test_inject_signal_from_waveform_generator_correct_injection(self):
+ original_strain = self.ifo.strain_data.frequency_domain_strain
+ self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
+ injection_polarizations = self.ifo.inject_signal_from_waveform_generator(
+ parameters=self.parameters, waveform_generator=self.waveform_generator
+ )
+ expected = (
+ injection_polarizations["plus"]
+ + injection_polarizations["cross"]
+ + original_strain
+ )
+ self.assertTrue(
+ np.array_equal(expected, self.ifo.strain_data._frequency_domain_strain)
+ )
+
+ def test_inject_signal_with_injection_polarizations(self):
+ original_strain = self.ifo.strain_data.frequency_domain_strain
+ self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
+ self.ifo.inject_signal(
+ parameters=self.parameters,
+ injection_polarizations=self.injection_polarizations,
+ )
+ expected = (
+ self.injection_polarizations["plus"]
+ + self.injection_polarizations["cross"]
+ + original_strain
+ )
+ self.assertTrue(
+ np.array_equal(expected, self.ifo.strain_data._frequency_domain_strain)
+ )
+
+ @patch.object(
+ bilby.gw.detector.Interferometer, "inject_signal_from_waveform_polarizations"
+ )
+ def test_inject_signal_with_injection_polarizations_and_waveform_generator(self, m):
+ self.ifo.get_detector_response = lambda x, params: x["plus"] + x["cross"]
+ _ = self.ifo.inject_signal(
+ parameters=self.parameters,
+ waveform_generator=self.waveform_generator,
+ injection_polarizations=self.injection_polarizations,
+ )
+ m.assert_called_with(
+ parameters=self.parameters,
+ injection_polarizations=self.injection_polarizations,
+ )
+ with self.assertRaises(ValueError):
+ m.assert_called_with(
+ parameters=self.parameters,
+ injection_polarizations=self.wg_polarizations,
+ )
+
+ def test_inject_signal_raises_value_error(self):
+ with self.assertRaises(ValueError):
+ self.ifo.inject_signal(injection_polarizations=None, parameters=None)
+
+ def test_time_delay_from_geocenter(self):
+ with mock.patch("bilby.gw.utils.time_delay_geocentric") as m:
+ m.return_value = 1
+ self.assertEqual(self.ifo.time_delay_from_geocenter(1, 2, 3), 1)
+
+ def test_vertex_position_geocentric(self):
+ with mock.patch("bilby.gw.utils.get_vertex_position_geocentric") as m:
+ m.return_value = 1
+ self.assertEqual(self.ifo.vertex_position_geocentric(), 1)
+
+ def test_optimal_snr_squared(self):
+ """
+ Merely checks parameters are given in the right order and the frequency
+ mask is applied.
+ """
+ with mock.patch("bilby.gw.utils.noise_weighted_inner_product") as m:
+ m.side_effect = lambda a, b, c, d: [a, b, c, d]
+ signal = np.ones_like(self.ifo.power_spectral_density_array)
+ mask = self.ifo.frequency_mask
+ expected = [
+ signal[mask],
+ signal[mask],
+ self.ifo.power_spectral_density_array[mask],
+ self.ifo.strain_data.duration,
+ ]
+ actual = self.ifo.optimal_snr_squared(signal=signal)
+ self.assertTrue(np.array_equal(expected[0], actual[0]))
+ self.assertTrue(np.array_equal(expected[1], actual[1]))
+ self.assertTrue(np.array_equal(expected[2], actual[2]))
+ self.assertEqual(expected[3], actual[3])
+
+ def test_repr(self):
+ expected = (
+ "Interferometer(name='{}', power_spectral_density={}, minimum_frequency={}, "
+ "maximum_frequency={}, length={}, latitude={}, longitude={}, elevation={}, xarm_azimuth={}, "
+ "yarm_azimuth={}, xarm_tilt={}, yarm_tilt={})".format(
+ self.name,
+ self.power_spectral_density,
+ float(self.minimum_frequency),
+ float(self.maximum_frequency),
+ float(self.length),
+ float(self.latitude),
+ float(self.longitude),
+ float(self.elevation),
+ float(self.xarm_azimuth),
+ float(self.yarm_azimuth),
+ float(self.xarm_tilt),
+ float(self.yarm_tilt),
+ )
+ )
+ self.assertEqual(expected, repr(self.ifo))
+
+ def test_to_and_from_hdf5_loading(self):
+ if sys.version_info[0] < 3:
+ with self.assertRaises(NotImplementedError):
+ self.ifo.to_hdf5(outdir="outdir", label="test")
+ else:
+ self.ifo.to_hdf5(outdir="outdir", label="test")
+ filename = self.ifo._hdf5_filename_from_outdir_label(
+ outdir="outdir", label="test"
+ )
+ recovered_ifo = bilby.gw.detector.Interferometer.from_hdf5(filename)
+ self.assertEqual(self.ifo, recovered_ifo)
+
+ def test_to_and_from_hdf5_wrong_class(self):
+ if sys.version_info[0] < 3:
+ pass
+ else:
+ bilby.core.utils.check_directory_exists_and_if_not_mkdir("outdir")
+ dd.io.save("./outdir/psd.h5", self.power_spectral_density)
+ filename = self.ifo._hdf5_filename_from_outdir_label(
+ outdir="outdir", label="psd"
+ )
+ with self.assertRaises(TypeError):
+ bilby.gw.detector.Interferometer.from_hdf5(filename)
+
+
+class TestInterferometerEquals(unittest.TestCase):
+ def setUp(self):
+ self.name = "name"
+ self.power_spectral_density_1 = (
+ bilby.gw.detector.PowerSpectralDensity.from_aligo()
+ )
+ self.power_spectral_density_2 = (
+ bilby.gw.detector.PowerSpectralDensity.from_aligo()
+ )
+ self.minimum_frequency = 10
+ self.maximum_frequency = 20
+ self.length = 30
+ self.latitude = 1
+ self.longitude = 2
+ self.elevation = 3
+ self.xarm_azimuth = 4
+ self.yarm_azimuth = 5
+ self.xarm_tilt = 0.0
+ self.yarm_tilt = 0.0
+ # noinspection PyTypeChecker
+ self.duration = 1
+ self.sampling_frequency = 200
+ self.frequency_array = bilby.utils.create_frequency_series(
+ sampling_frequency=self.sampling_frequency, duration=self.duration
+ )
+ self.strain = self.frequency_array
+ self.ifo_1 = bilby.gw.detector.Interferometer(
+ name=self.name,
+ power_spectral_density=self.power_spectral_density_1,
+ minimum_frequency=self.minimum_frequency,
+ maximum_frequency=self.maximum_frequency,
+ length=self.length,
+ latitude=self.latitude,
+ longitude=self.longitude,
+ elevation=self.elevation,
+ xarm_azimuth=self.xarm_azimuth,
+ yarm_azimuth=self.yarm_azimuth,
+ xarm_tilt=self.xarm_tilt,
+ yarm_tilt=self.yarm_tilt,
+ )
+ self.ifo_2 = bilby.gw.detector.Interferometer(
+ name=self.name,
+ power_spectral_density=self.power_spectral_density_2,
+ minimum_frequency=self.minimum_frequency,
+ maximum_frequency=self.maximum_frequency,
+ length=self.length,
+ latitude=self.latitude,
+ longitude=self.longitude,
+ elevation=self.elevation,
+ xarm_azimuth=self.xarm_azimuth,
+ yarm_azimuth=self.yarm_azimuth,
+ xarm_tilt=self.xarm_tilt,
+ yarm_tilt=self.yarm_tilt,
+ )
+ self.ifo_1.set_strain_data_from_frequency_domain_strain(
+ frequency_array=self.frequency_array, frequency_domain_strain=self.strain
+ )
+ self.ifo_2.set_strain_data_from_frequency_domain_strain(
+ frequency_array=self.frequency_array, frequency_domain_strain=self.strain
+ )
+
+ def tearDown(self):
+ del self.name
+ del self.power_spectral_density_1
+ del self.power_spectral_density_2
+ del self.minimum_frequency
+ del self.maximum_frequency
+ del self.length
+ del self.latitude
+ del self.longitude
+ del self.elevation
+ del self.xarm_azimuth
+ del self.yarm_azimuth
+ del self.xarm_tilt
+ del self.yarm_tilt
+ del self.ifo_1
+ del self.ifo_2
+ del self.sampling_frequency
+ del self.duration
+ del self.frequency_array
+ del self.strain
+
+ def test_eq_true(self):
+ self.assertEqual(self.ifo_1, self.ifo_2)
+
+ def test_eq_false_different_psd(self):
+ self.ifo_1.power_spectral_density.psd_array[0] = 1234
+ self.assertNotEqual(self.ifo_1, self.ifo_2)
+
+ def test_eq_false_different_minimum_frequency(self):
+ self.ifo_1.minimum_frequency -= 1
+ self.assertNotEqual(self.ifo_1, self.ifo_2)
+
+ def test_eq_false_different_maximum_frequency(self):
+ self.ifo_1.minimum_frequency -= 1
+ self.assertNotEqual(self.ifo_1, self.ifo_2)
+
+ def test_eq_false_different_length(self):
+ self.ifo_1.length -= 1
+ self.assertNotEqual(self.ifo_1, self.ifo_2)
+
+ def test_eq_false_different_latitude(self):
+ self.ifo_1.latitude -= 1
+ self.assertNotEqual(self.ifo_1, self.ifo_2)
+
+ def test_eq_false_different_longitude(self):
+ self.ifo_1.longitude -= 1
+ self.assertNotEqual(self.ifo_1, self.ifo_2)
+
+ def test_eq_false_different_elevation(self):
+ self.ifo_1.elevation -= 1
+ self.assertNotEqual(self.ifo_1, self.ifo_2)
+
+ def test_eq_false_different_xarm_azimuth(self):
+ self.ifo_1.xarm_azimuth -= 1
+ self.assertNotEqual(self.ifo_1, self.ifo_2)
+
+ def test_eq_false_different_xarmtilt(self):
+ self.ifo_1.xarm_tilt -= 1
+ self.assertNotEqual(self.ifo_1, self.ifo_2)
+
+ def test_eq_false_different_yarm_azimuth(self):
+ self.ifo_1.yarm_azimuth -= 1
+ self.assertNotEqual(self.ifo_1, self.ifo_2)
+
+ def test_eq_false_different_yarm_tilt(self):
+ self.ifo_1.yarm_tilt -= 1
+ self.assertNotEqual(self.ifo_1, self.ifo_2)
+
+ def test_eq_false_different_ifo_strain_data(self):
+ self.strain = bilby.utils.create_frequency_series(
+ sampling_frequency=self.sampling_frequency / 2, duration=self.duration * 2
+ )
+ self.ifo_1.set_strain_data_from_frequency_domain_strain(
+ frequency_array=self.frequency_array, frequency_domain_strain=self.strain
+ )
+ self.assertNotEqual(self.ifo_1, self.ifo_2)
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/gw/detector/networks_test.py b/test/gw/detector/networks_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..3627db3ba65349979d34c9147cfe916018cd6883
--- /dev/null
+++ b/test/gw/detector/networks_test.py
@@ -0,0 +1,355 @@
+import sys
+import unittest
+from shutil import rmtree
+
+import deepdish as dd
+import mock
+import numpy as np
+from mock import patch, MagicMock
+
+import bilby
+
+
+class TestInterferometerList(unittest.TestCase):
+ def setUp(self):
+ self.frequency_arrays = np.linspace(0, 4096, 4097)
+ self.name1 = "name1"
+ self.name2 = "name2"
+ self.power_spectral_density1 = (
+ bilby.gw.detector.PowerSpectralDensity.from_aligo()
+ )
+ self.power_spectral_density2 = (
+ bilby.gw.detector.PowerSpectralDensity.from_aligo()
+ )
+ self.minimum_frequency1 = 10
+ self.minimum_frequency2 = 10
+ self.maximum_frequency1 = 20
+ self.maximum_frequency2 = 20
+ self.length1 = 30
+ self.length2 = 30
+ self.latitude1 = 1
+ self.latitude2 = 1
+ self.longitude1 = 2
+ self.longitude2 = 2
+ self.elevation1 = 3
+ self.elevation2 = 3
+ self.xarm_azimuth1 = 4
+ self.xarm_azimuth2 = 4
+ self.yarm_azimuth1 = 5
+ self.yarm_azimuth2 = 5
+ self.xarm_tilt1 = 0.0
+ self.xarm_tilt2 = 0.0
+ self.yarm_tilt1 = 0.0
+ self.yarm_tilt2 = 0.0
+ # noinspection PyTypeChecker
+ self.ifo1 = bilby.gw.detector.Interferometer(
+ name=self.name1,
+ power_spectral_density=self.power_spectral_density1,
+ minimum_frequency=self.minimum_frequency1,
+ maximum_frequency=self.maximum_frequency1,
+ length=self.length1,
+ latitude=self.latitude1,
+ longitude=self.longitude1,
+ elevation=self.elevation1,
+ xarm_azimuth=self.xarm_azimuth1,
+ yarm_azimuth=self.yarm_azimuth1,
+ xarm_tilt=self.xarm_tilt1,
+ yarm_tilt=self.yarm_tilt1,
+ )
+ self.ifo2 = bilby.gw.detector.Interferometer(
+ name=self.name2,
+ power_spectral_density=self.power_spectral_density2,
+ minimum_frequency=self.minimum_frequency2,
+ maximum_frequency=self.maximum_frequency2,
+ length=self.length2,
+ latitude=self.latitude2,
+ longitude=self.longitude2,
+ elevation=self.elevation2,
+ xarm_azimuth=self.xarm_azimuth2,
+ yarm_azimuth=self.yarm_azimuth2,
+ xarm_tilt=self.xarm_tilt2,
+ yarm_tilt=self.yarm_tilt2,
+ )
+ self.ifo1.strain_data.set_from_frequency_domain_strain(
+ self.frequency_arrays, sampling_frequency=4096, duration=2
+ )
+ self.ifo2.strain_data.set_from_frequency_domain_strain(
+ self.frequency_arrays, sampling_frequency=4096, duration=2
+ )
+ self.ifo_list = bilby.gw.detector.InterferometerList([self.ifo1, self.ifo2])
+ self.outdir = "outdir"
+ bilby.core.utils.check_directory_exists_and_if_not_mkdir(self.outdir)
+
+ def tearDown(self):
+ del self.frequency_arrays
+ del self.name1
+ del self.name2
+ del self.power_spectral_density1
+ del self.power_spectral_density2
+ del self.minimum_frequency1
+ del self.minimum_frequency2
+ del self.maximum_frequency1
+ del self.maximum_frequency2
+ del self.length1
+ del self.length2
+ del self.latitude1
+ del self.latitude2
+ del self.longitude1
+ del self.longitude2
+ del self.elevation1
+ del self.elevation2
+ del self.xarm_azimuth1
+ del self.xarm_azimuth2
+ del self.yarm_azimuth1
+ del self.yarm_azimuth2
+ del self.xarm_tilt1
+ del self.xarm_tilt2
+ del self.yarm_tilt1
+ del self.yarm_tilt2
+ del self.ifo1
+ del self.ifo2
+ del self.ifo_list
+ rmtree(self.outdir)
+
+ def test_init_with_string(self):
+ with self.assertRaises(TypeError):
+ bilby.gw.detector.InterferometerList("string")
+
+ def test_init_with_string_list(self):
+ """ Merely checks if this ends up in the right bracket """
+ with mock.patch("bilby.gw.detector.networks.get_empty_interferometer") as m:
+ m.side_effect = TypeError
+ with self.assertRaises(TypeError):
+ bilby.gw.detector.InterferometerList(["string"])
+
+ def test_init_with_other_object(self):
+ with self.assertRaises(TypeError):
+ bilby.gw.detector.InterferometerList([object()])
+
+ def test_init_with_actual_ifos(self):
+ ifo_list = bilby.gw.detector.InterferometerList([self.ifo1, self.ifo2])
+ self.assertEqual(self.ifo1, ifo_list[0])
+ self.assertEqual(self.ifo2, ifo_list[1])
+
+ def test_init_inconsistent_duration(self):
+ self.frequency_arrays = np.linspace(0, 2048, 2049)
+ self.ifo2 = bilby.gw.detector.Interferometer(
+ name=self.name2,
+ power_spectral_density=self.power_spectral_density2,
+ minimum_frequency=self.minimum_frequency2,
+ maximum_frequency=self.maximum_frequency2,
+ length=self.length2,
+ latitude=self.latitude2,
+ longitude=self.longitude2,
+ elevation=self.elevation2,
+ xarm_azimuth=self.xarm_azimuth2,
+ yarm_azimuth=self.yarm_azimuth2,
+ xarm_tilt=self.xarm_tilt2,
+ yarm_tilt=self.yarm_tilt2,
+ )
+ self.ifo2.strain_data.set_from_frequency_domain_strain(
+ self.frequency_arrays, sampling_frequency=4096, duration=1
+ )
+ with self.assertRaises(ValueError):
+ bilby.gw.detector.InterferometerList([self.ifo1, self.ifo2])
+
+ def test_init_inconsistent_sampling_frequency(self):
+ self.frequency_arrays = np.linspace(0, 2048, 2049)
+ self.ifo2 = bilby.gw.detector.Interferometer(
+ name=self.name2,
+ power_spectral_density=self.power_spectral_density2,
+ minimum_frequency=self.minimum_frequency2,
+ maximum_frequency=self.maximum_frequency2,
+ length=self.length2,
+ latitude=self.latitude2,
+ longitude=self.longitude2,
+ elevation=self.elevation2,
+ xarm_azimuth=self.xarm_azimuth2,
+ yarm_azimuth=self.yarm_azimuth2,
+ xarm_tilt=self.xarm_tilt2,
+ yarm_tilt=self.yarm_tilt2,
+ )
+ self.ifo2.strain_data.set_from_frequency_domain_strain(
+ self.frequency_arrays, sampling_frequency=2048, duration=2
+ )
+ with self.assertRaises(ValueError):
+ bilby.gw.detector.InterferometerList([self.ifo1, self.ifo2])
+
+ def test_init_inconsistent_start_time(self):
+ self.ifo2.strain_data.start_time = 1
+ with self.assertRaises(ValueError):
+ bilby.gw.detector.InterferometerList([self.ifo1, self.ifo2])
+
+ @patch.object(bilby.gw.detector.networks.logger, "warning")
+ def test_check_interferometers_relative_tolerance(self, mock_warning):
+ # Value larger than relative tolerance -- not tolerated
+ self.ifo2.strain_data.start_time = self.ifo1.strain_data.start_time + 1e-4
+ with self.assertRaises(ValueError):
+ bilby.gw.detector.InterferometerList([self.ifo1, self.ifo2])
+
+ # Value smaller than relative tolerance -- tolerated with warning
+ self.ifo2.strain_data.start_time = self.ifo1.strain_data.start_time + 1e-6
+ ifo_list = bilby.gw.detector.InterferometerList([self.ifo1, self.ifo2])
+ self.assertIsNotNone(ifo_list)
+ self.assertTrue(mock_warning.called)
+ warning_log_str = mock_warning.call_args.args[0].args[0]
+ self.assertIsInstance(warning_log_str, str)
+ self.assertTrue(
+ "The start_time of all interferometers are not the same:" in warning_log_str
+ )
+
+ @patch.object(
+ bilby.gw.detector.Interferometer, "set_strain_data_from_power_spectral_density"
+ )
+ def test_set_strain_data_from_power_spectral_density(self, m):
+ self.ifo_list.set_strain_data_from_power_spectral_densities(
+ sampling_frequency=123, duration=6.2, start_time=3
+ )
+ m.assert_called_with(sampling_frequency=123, duration=6.2, start_time=3)
+ self.assertEqual(len(self.ifo_list), m.call_count)
+
+ def test_inject_signal_pol_and_wg_none(self):
+ with self.assertRaises(ValueError):
+ self.ifo_list.inject_signal(
+ injection_polarizations=None, waveform_generator=None
+ )
+
+ def test_meta_data(self):
+ ifos_list = [self.ifo1, self.ifo2]
+ ifos = bilby.gw.detector.InterferometerList(ifos_list)
+ self.assertTrue(isinstance(ifos.meta_data, dict))
+ meta_data = {ifo.name: ifo.meta_data for ifo in ifos_list}
+ self.assertEqual(ifos.meta_data, meta_data)
+
+ @patch.object(
+ bilby.gw.waveform_generator.WaveformGenerator, "frequency_domain_strain"
+ )
+ def test_inject_signal_pol_none_calls_frequency_domain_strain(self, m):
+ waveform_generator = bilby.gw.waveform_generator.WaveformGenerator(
+ frequency_domain_source_model=lambda x, y, z: x
+ )
+ self.ifo1.inject_signal = MagicMock(return_value=None)
+ self.ifo2.inject_signal = MagicMock(return_value=None)
+ self.ifo_list.inject_signal(
+ parameters=None, waveform_generator=waveform_generator
+ )
+ self.assertTrue(m.called)
+
+ @patch.object(bilby.gw.detector.Interferometer, "inject_signal")
+ def test_inject_signal_with_inj_pol(self, m):
+ self.ifo_list.inject_signal(injection_polarizations=dict(plus=1))
+ m.assert_called_with(parameters=None, injection_polarizations=dict(plus=1))
+ self.assertEqual(len(self.ifo_list), m.call_count)
+
+ @patch.object(bilby.gw.detector.Interferometer, "inject_signal")
+ def test_inject_signal_returns_expected_polarisations(self, m):
+ m.return_value = dict(plus=1, cross=2)
+ injection_polarizations = dict(plus=1, cross=2)
+ ifos_pol = self.ifo_list.inject_signal(
+ injection_polarizations=injection_polarizations
+ )
+ self.assertDictEqual(
+ self.ifo1.inject_signal(injection_polarizations=injection_polarizations),
+ ifos_pol[0],
+ )
+ self.assertDictEqual(
+ self.ifo2.inject_signal(injection_polarizations=injection_polarizations),
+ ifos_pol[1],
+ )
+
+ @patch.object(bilby.gw.detector.Interferometer, "save_data")
+ def test_save_data(self, m):
+ self.ifo_list.save_data(outdir="test_outdir", label="test_outdir")
+ m.assert_called_with(outdir="test_outdir", label="test_outdir")
+ self.assertEqual(len(self.ifo_list), m.call_count)
+
+ def test_number_of_interferometers(self):
+ self.assertEqual(len(self.ifo_list), self.ifo_list.number_of_interferometers)
+
+ def test_duration(self):
+ self.assertEqual(self.ifo1.strain_data.duration, self.ifo_list.duration)
+ self.assertEqual(self.ifo2.strain_data.duration, self.ifo_list.duration)
+
+ def test_sampling_frequency(self):
+ self.assertEqual(
+ self.ifo1.strain_data.sampling_frequency, self.ifo_list.sampling_frequency
+ )
+ self.assertEqual(
+ self.ifo2.strain_data.sampling_frequency, self.ifo_list.sampling_frequency
+ )
+
+ def test_start_time(self):
+ self.assertEqual(self.ifo1.strain_data.start_time, self.ifo_list.start_time)
+ self.assertEqual(self.ifo2.strain_data.start_time, self.ifo_list.start_time)
+
+ def test_frequency_array(self):
+ self.assertTrue(
+ np.array_equal(
+ self.ifo1.strain_data.frequency_array, self.ifo_list.frequency_array
+ )
+ )
+ self.assertTrue(
+ np.array_equal(
+ self.ifo2.strain_data.frequency_array, self.ifo_list.frequency_array
+ )
+ )
+
+ def test_append_with_ifo(self):
+ self.ifo_list.append(self.ifo2)
+ names = [ifo.name for ifo in self.ifo_list]
+ self.assertListEqual([self.ifo1.name, self.ifo2.name, self.ifo2.name], names)
+
+ def test_append_with_ifo_list(self):
+ self.ifo_list.append(self.ifo_list)
+ names = [ifo.name for ifo in self.ifo_list]
+ self.assertListEqual(
+ [self.ifo1.name, self.ifo2.name, self.ifo1.name, self.ifo2.name], names
+ )
+
+ def test_extend(self):
+ self.ifo_list.extend(self.ifo_list)
+ names = [ifo.name for ifo in self.ifo_list]
+ self.assertListEqual(
+ [self.ifo1.name, self.ifo2.name, self.ifo1.name, self.ifo2.name], names
+ )
+
+ def test_insert(self):
+ new_ifo = self.ifo1
+ new_ifo.name = "name3"
+ self.ifo_list.insert(1, new_ifo)
+ names = [ifo.name for ifo in self.ifo_list]
+ self.assertListEqual([self.ifo1.name, new_ifo.name, self.ifo2.name], names)
+
+ def test_to_and_from_hdf5_loading(self):
+ if sys.version_info[0] < 3:
+ with self.assertRaises(NotImplementedError):
+ self.ifo_list.to_hdf5(outdir="outdir", label="test")
+ else:
+ self.ifo_list.to_hdf5(outdir="outdir", label="test")
+ filename = "outdir/test_name1name2.h5"
+ recovered_ifo = bilby.gw.detector.InterferometerList.from_hdf5(filename)
+ self.assertListEqual(self.ifo_list, recovered_ifo)
+
+ def test_to_and_from_hdf5_wrong_class(self):
+ if sys.version_info[0] < 3:
+ pass
+ else:
+ dd.io.save("./outdir/psd.h5", self.ifo_list[0].power_spectral_density)
+ filename = self.ifo_list._hdf5_filename_from_outdir_label(
+ outdir="outdir", label="psd"
+ )
+ with self.assertRaises(TypeError):
+ bilby.gw.detector.InterferometerList.from_hdf5(filename)
+
+ def test_plot_data(self):
+ ifos = bilby.gw.detector.InterferometerList(["H1", "L1"])
+ ifos.set_strain_data_from_power_spectral_densities(2048, 4)
+ ifos.plot_data(outdir=self.outdir)
+
+ ifos = bilby.gw.detector.InterferometerList(["H1", "L1", "V1"])
+ ifos.set_strain_data_from_power_spectral_densities(2048, 4)
+ ifos.plot_data(outdir=self.outdir)
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/gw/detector/psd_test.py b/test/gw/detector/psd_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..2d9f9acb6ee4ee62b678def08160f7f7b700a59a
--- /dev/null
+++ b/test/gw/detector/psd_test.py
@@ -0,0 +1,312 @@
+import logging
+import os
+import unittest
+
+import mock
+import numpy as np
+from mock import MagicMock
+
+import bilby
+
+
+class TestPowerSpectralDensityWithoutFiles(unittest.TestCase):
+ def setUp(self):
+ self.frequency_array = np.array([1.0, 2.0, 3.0])
+ self.psd_array = np.array([16.0, 25.0, 36.0])
+ self.asd_array = np.array([4.0, 5.0, 6.0])
+
+ def tearDown(self):
+ del self.frequency_array
+ del self.psd_array
+ del self.asd_array
+
+ def test_init_with_asd_array(self):
+ psd = bilby.gw.detector.PowerSpectralDensity(
+ frequency_array=self.frequency_array, asd_array=self.asd_array
+ )
+ self.assertTrue(np.array_equal(self.frequency_array, psd.frequency_array))
+ self.assertTrue(np.array_equal(self.asd_array, psd.asd_array))
+ self.assertTrue(np.array_equal(self.psd_array, psd.psd_array))
+
+ def test_init_with_psd_array(self):
+ psd = bilby.gw.detector.PowerSpectralDensity(
+ frequency_array=self.frequency_array, psd_array=self.psd_array
+ )
+ self.assertTrue(np.array_equal(self.frequency_array, psd.frequency_array))
+ self.assertTrue(np.array_equal(self.asd_array, psd.asd_array))
+ self.assertTrue(np.array_equal(self.psd_array, psd.psd_array))
+
+ def test_setting_asd_array_after_init(self):
+ psd = bilby.gw.detector.PowerSpectralDensity(
+ frequency_array=self.frequency_array
+ )
+ psd.asd_array = self.asd_array
+ self.assertTrue(np.array_equal(self.frequency_array, psd.frequency_array))
+ self.assertTrue(np.array_equal(self.asd_array, psd.asd_array))
+ self.assertTrue(np.array_equal(self.psd_array, psd.psd_array))
+
+ def test_setting_psd_array_after_init(self):
+ psd = bilby.gw.detector.PowerSpectralDensity(
+ frequency_array=self.frequency_array
+ )
+ psd.psd_array = self.psd_array
+ self.assertTrue(np.array_equal(self.frequency_array, psd.frequency_array))
+ self.assertTrue(np.array_equal(self.asd_array, psd.asd_array))
+ self.assertTrue(np.array_equal(self.psd_array, psd.psd_array))
+
+ def test_power_spectral_density_interpolated_from_asd_array(self):
+ expected = np.array([25.0])
+ psd = bilby.gw.detector.PowerSpectralDensity(
+ frequency_array=self.frequency_array, asd_array=self.asd_array
+ )
+ self.assertEqual(expected, psd.power_spectral_density_interpolated(2))
+
+ def test_power_spectral_density_interpolated_from_psd_array(self):
+ expected = np.array([25.0])
+ psd = bilby.gw.detector.PowerSpectralDensity(
+ frequency_array=self.frequency_array, psd_array=self.psd_array
+ )
+ self.assertEqual(expected, psd.power_spectral_density_interpolated(2))
+
+ def test_from_amplitude_spectral_density_array(self):
+ actual = bilby.gw.detector.PowerSpectralDensity.from_amplitude_spectral_density_array(
+ frequency_array=self.frequency_array, asd_array=self.asd_array
+ )
+ self.assertTrue(np.array_equal(self.psd_array, actual.psd_array))
+ self.assertTrue(np.array_equal(self.asd_array, actual.asd_array))
+
+ def test_from_power_spectral_density_array(self):
+ actual = bilby.gw.detector.PowerSpectralDensity.from_power_spectral_density_array(
+ frequency_array=self.frequency_array, psd_array=self.psd_array
+ )
+ self.assertTrue(np.array_equal(self.psd_array, actual.psd_array))
+ self.assertTrue(np.array_equal(self.asd_array, actual.asd_array))
+
+ def test_repr(self):
+ psd = bilby.gw.detector.PowerSpectralDensity(
+ frequency_array=self.frequency_array, psd_array=self.psd_array
+ )
+ expected = "PowerSpectralDensity(frequency_array={}, psd_array={}, asd_array={})".format(
+ self.frequency_array, self.psd_array, self.asd_array
+ )
+ self.assertEqual(expected, repr(psd))
+
+
+class TestPowerSpectralDensityWithFiles(unittest.TestCase):
+ def setUp(self):
+ self.dir = os.path.join(os.path.dirname(__file__), "noise_curves")
+ os.mkdir(self.dir)
+ self.asd_file = os.path.join(
+ os.path.dirname(__file__), "noise_curves", "asd_test_file.txt"
+ )
+ self.psd_file = os.path.join(
+ os.path.dirname(__file__), "noise_curves", "psd_test_file.txt"
+ )
+ with open(self.asd_file, "w") as f:
+ f.write("1.\t1.0e-21\n2.\t2.0e-21\n3.\t3.0e-21")
+ with open(self.psd_file, "w") as f:
+ f.write("1.\t1.0e-42\n2.\t4.0e-42\n3.\t9.0e-42")
+ self.frequency_array = np.array([1.0, 2.0, 3.0])
+ self.asd_array = np.array([1.0e-21, 2.0e-21, 3.0e-21])
+ self.psd_array = np.array([1.0e-42, 4.0e-42, 9.0e-42])
+
+ def tearDown(self):
+ os.remove(self.asd_file)
+ os.remove(self.psd_file)
+ os.rmdir(self.dir)
+ del self.dir
+ del self.asd_array
+ del self.psd_array
+ del self.asd_file
+ del self.psd_file
+
+ def test_init_with_psd_file(self):
+ psd = bilby.gw.detector.PowerSpectralDensity(
+ frequency_array=self.frequency_array, psd_file=self.psd_file
+ )
+ self.assertEqual(self.psd_file, psd.psd_file)
+ self.assertTrue(np.array_equal(self.psd_array, psd.psd_array))
+ self.assertTrue(np.allclose(self.asd_array, psd.asd_array, atol=1e-30))
+
+ def test_init_with_asd_file(self):
+ psd = bilby.gw.detector.PowerSpectralDensity(
+ frequency_array=self.frequency_array, asd_file=self.asd_file
+ )
+ self.assertEqual(self.asd_file, psd.asd_file)
+ self.assertTrue(np.allclose(self.psd_array, psd.psd_array, atol=1e-60))
+ self.assertTrue(np.array_equal(self.asd_array, psd.asd_array))
+
+ def test_setting_psd_array_after_init(self):
+ psd = bilby.gw.detector.PowerSpectralDensity(
+ frequency_array=self.frequency_array
+ )
+ psd.psd_file = self.psd_file
+ self.assertEqual(self.psd_file, psd.psd_file)
+ self.assertTrue(np.array_equal(self.psd_array, psd.psd_array))
+ self.assertTrue(np.allclose(self.asd_array, psd.asd_array, atol=1e-30))
+
+ def test_init_with_asd_array_after_init(self):
+ psd = bilby.gw.detector.PowerSpectralDensity(
+ frequency_array=self.frequency_array
+ )
+ psd.asd_file = self.asd_file
+ self.assertEqual(self.asd_file, psd.asd_file)
+ self.assertTrue(np.allclose(self.psd_array, psd.psd_array, atol=1e-60))
+ self.assertTrue(np.array_equal(self.asd_array, psd.asd_array))
+
+ def test_power_spectral_density_interpolated_from_asd_file(self):
+ expected = np.array([4.0e-42])
+ psd = bilby.gw.detector.PowerSpectralDensity(
+ frequency_array=self.frequency_array, asd_file=self.asd_file
+ )
+ self.assertTrue(
+ np.allclose(
+ expected, psd.power_spectral_density_interpolated(2), atol=1e-60
+ )
+ )
+
+ def test_power_spectral_density_interpolated_from_psd_file(self):
+ expected = np.array([4.0e-42])
+ psd = bilby.gw.detector.PowerSpectralDensity(
+ frequency_array=self.frequency_array, psd_file=self.psd_file
+ )
+ self.assertAlmostEqual(expected, psd.power_spectral_density_interpolated(2))
+
+ def test_from_amplitude_spectral_density_file(self):
+ psd = bilby.gw.detector.PowerSpectralDensity.from_amplitude_spectral_density_file(
+ asd_file=self.asd_file
+ )
+ self.assertEqual(self.asd_file, psd.asd_file)
+ self.assertTrue(np.allclose(self.psd_array, psd.psd_array, atol=1e-60))
+ self.assertTrue(np.array_equal(self.asd_array, psd.asd_array))
+
+ def test_from_power_spectral_density_file(self):
+ psd = bilby.gw.detector.PowerSpectralDensity.from_power_spectral_density_file(
+ psd_file=self.psd_file
+ )
+ self.assertEqual(self.psd_file, psd.psd_file)
+ self.assertTrue(np.array_equal(self.psd_array, psd.psd_array))
+ self.assertTrue(np.allclose(self.asd_array, psd.asd_array, atol=1e-30))
+
+ def test_from_aligo(self):
+ psd = bilby.gw.detector.PowerSpectralDensity.from_aligo()
+ expected_filename = "aLIGO_ZERO_DET_high_P_psd.txt"
+ expected = bilby.gw.detector.PowerSpectralDensity(psd_file=expected_filename)
+ actual_filename = psd.psd_file.split("/")[-1]
+ self.assertEqual(expected_filename, actual_filename)
+ self.assertTrue(np.allclose(expected.psd_array, psd.psd_array, atol=1e-60))
+ self.assertTrue(np.array_equal(expected.asd_array, psd.asd_array))
+
+ def test_check_file_psd_file_set_to_asd_file(self):
+ logger = logging.getLogger("bilby")
+ m = MagicMock()
+ logger.warning = m
+ _ = bilby.gw.detector.PowerSpectralDensity(psd_file=self.asd_file)
+ self.assertEqual(4, m.call_count)
+
+ def test_check_file_not_called_psd_file_set_to_psd_file(self):
+ logger = logging.getLogger("bilby")
+ m = MagicMock()
+ logger.warning = m
+ _ = bilby.gw.detector.PowerSpectralDensity(psd_file=self.psd_file)
+ self.assertEqual(0, m.call_count)
+
+ def test_check_file_asd_file_set_to_psd_file(self):
+ logger = logging.getLogger("bilby")
+ m = MagicMock()
+ logger.warning = m
+ _ = bilby.gw.detector.PowerSpectralDensity(asd_file=self.psd_file)
+ self.assertEqual(4, m.call_count)
+
+ def test_check_file_not_called_asd_file_set_to_asd_file(self):
+ logger = logging.getLogger("bilby")
+ m = MagicMock()
+ logger.warning = m
+ _ = bilby.gw.detector.PowerSpectralDensity(asd_file=self.asd_file)
+ self.assertEqual(0, m.call_count)
+
+ def test_from_frame_file(self):
+ expected_frequency_array = np.array([1.0, 2.0, 3.0])
+ expected_psd_array = np.array([16.0, 25.0, 36.0])
+ with mock.patch(
+ "bilby.gw.detector.InterferometerStrainData.set_from_frame_file"
+ ) as _:
+ with mock.patch(
+ "bilby.gw.detector.InterferometerStrainData.create_power_spectral_density"
+ ) as n:
+ n.return_value = expected_frequency_array, expected_psd_array
+ psd = bilby.gw.detector.PowerSpectralDensity.from_frame_file(
+ frame_file=self.asd_file, psd_start_time=0, psd_duration=4
+ )
+ self.assertTrue(
+ np.array_equal(expected_frequency_array, psd.frequency_array)
+ )
+ self.assertTrue(np.array_equal(expected_psd_array, psd.psd_array))
+
+ def test_repr(self):
+ psd = bilby.gw.detector.PowerSpectralDensity(psd_file=self.psd_file)
+ expected = "PowerSpectralDensity(psd_file='{}', asd_file='{}')".format(
+ self.psd_file, None
+ )
+ self.assertEqual(expected, repr(psd))
+
+
+class TestPowerSpectralDensityEquals(unittest.TestCase):
+ def setUp(self):
+ self.psd_from_file_1 = bilby.gw.detector.PowerSpectralDensity.from_aligo()
+ self.psd_from_file_2 = bilby.gw.detector.PowerSpectralDensity.from_aligo()
+ self.frequency_array = np.linspace(1, 100)
+ self.psd_array = np.linspace(1, 100)
+ self.psd_from_array_1 = bilby.gw.detector.PowerSpectralDensity.from_power_spectral_density_array(
+ frequency_array=self.frequency_array, psd_array=self.psd_array
+ )
+ self.psd_from_array_2 = bilby.gw.detector.PowerSpectralDensity.from_power_spectral_density_array(
+ frequency_array=self.frequency_array, psd_array=self.psd_array
+ )
+
+ def tearDown(self):
+ del self.psd_from_file_1
+ del self.psd_from_file_2
+ del self.frequency_array
+ del self.psd_array
+ del self.psd_from_array_1
+ del self.psd_from_array_2
+
+ def test_eq_true_from_array(self):
+ self.assertEqual(self.psd_from_array_1, self.psd_from_array_2)
+
+ def test_eq_true_from_file(self):
+ self.assertEqual(self.psd_from_file_1, self.psd_from_file_2)
+
+ def test_eq_false_different_psd_file_name(self):
+ self.psd_from_file_1._psd_file = "some_other_name"
+ self.assertNotEqual(self.psd_from_file_1, self.psd_from_file_2)
+
+ def test_eq_false_different_asd_file_name(self):
+ self.psd_from_file_1._psd_file = None
+ self.psd_from_file_2._psd_file = None
+ self.psd_from_file_1._asd_file = "some_name"
+ self.psd_from_file_2._asd_file = "some_other_name"
+ self.assertNotEqual(self.psd_from_file_1, self.psd_from_file_2)
+
+ def test_eq_false_different_frequency_array(self):
+ self.psd_from_file_1.frequency_array[0] = 0.5
+ self.psd_from_array_1.frequency_array[0] = 0.5
+ self.assertNotEqual(self.psd_from_file_1, self.psd_from_file_2)
+ self.assertNotEqual(self.psd_from_array_1, self.psd_from_array_2)
+
+ def test_eq_false_different_psd(self):
+ self.psd_from_file_1.psd_array[0] = 0.53544321
+ self.psd_from_array_1.psd_array[0] = 0.53544321
+ self.assertNotEqual(self.psd_from_file_1, self.psd_from_file_2)
+ self.assertNotEqual(self.psd_from_array_1, self.psd_from_array_2)
+
+ def test_eq_false_different_asd(self):
+ self.psd_from_file_1.asd_array[0] = 0.53544321
+ self.psd_from_array_1.asd_array[0] = 0.53544321
+ self.assertNotEqual(self.psd_from_file_1, self.psd_from_file_2)
+ self.assertNotEqual(self.psd_from_array_1, self.psd_from_array_2)
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/gw/detector/strain_data_test.py b/test/gw/detector/strain_data_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..a11e347df563b96afdde5e025abc47974a5fc989
--- /dev/null
+++ b/test/gw/detector/strain_data_test.py
@@ -0,0 +1,320 @@
+import unittest
+
+import mock
+import numpy as np
+import scipy.signal
+from mock import patch
+
+import bilby
+
+
+class TestInterferometerStrainData(unittest.TestCase):
+ def setUp(self):
+ self.minimum_frequency = 10
+ self.maximum_frequency = 20
+ self.ifosd = bilby.gw.detector.InterferometerStrainData(
+ minimum_frequency=self.minimum_frequency,
+ maximum_frequency=self.maximum_frequency,
+ )
+
+ def tearDown(self):
+ del self.minimum_frequency
+ del self.maximum_frequency
+ del self.ifosd
+
+ def test_frequency_mask(self):
+ self.minimum_frequency = 10
+ self.maximum_frequency = 20
+ with mock.patch("bilby.core.utils.create_frequency_series") as m:
+ m.return_value = np.array([5, 15, 25])
+ self.ifosd.set_from_frequency_domain_strain(
+ frequency_domain_strain=np.array([0, 1, 2]),
+ frequency_array=np.array([5, 15, 25]),
+ )
+ self.assertTrue(
+ np.array_equal(self.ifosd.frequency_mask, [False, True, False])
+ )
+
+ def test_set_data_fails(self):
+ with mock.patch("bilby.core.utils.create_frequency_series") as m:
+ m.return_value = [1, 2, 3]
+ with self.assertRaises(ValueError):
+ self.ifosd.set_from_frequency_domain_strain(
+ frequency_domain_strain=np.array([0, 1, 2])
+ )
+
+ def test_set_data_fails_too_much(self):
+ with mock.patch("bilby.core.utils.create_frequency_series") as m:
+ m.return_value = [1, 2, 3]
+ with self.assertRaises(ValueError):
+ self.ifosd.set_from_frequency_domain_strain(
+ frequency_domain_strain=np.array([0, 1, 2]),
+ frequency_array=np.array([1, 2, 3]),
+ duration=3,
+ sampling_frequency=1,
+ )
+
+ def test_start_time_init(self):
+ with mock.patch("bilby.core.utils.create_frequency_series") as m:
+ m.return_value = [1, 2, 3]
+ duration = 3
+ sampling_frequency = 1
+ self.ifosd.set_from_frequency_domain_strain(
+ frequency_domain_strain=np.array([0, 1, 2]),
+ duration=duration,
+ sampling_frequency=sampling_frequency,
+ )
+ self.assertTrue(self.ifosd.start_time == 0)
+
+ def test_start_time_set(self):
+ with mock.patch("bilby.core.utils.create_frequency_series") as m:
+ m.return_value = [1, 2, 3]
+ duration = 3
+ sampling_frequency = 1
+ self.ifosd.set_from_frequency_domain_strain(
+ frequency_domain_strain=np.array([0, 1, 2]),
+ duration=duration,
+ sampling_frequency=sampling_frequency,
+ start_time=10,
+ )
+ self.assertTrue(self.ifosd.start_time == 10)
+
+ def test_time_array_frequency_array_consistency(self):
+ duration = 1
+ sampling_frequency = 10
+ time_array = bilby.core.utils.create_time_series(
+ sampling_frequency=sampling_frequency, duration=duration
+ )
+ time_domain_strain = np.random.normal(
+ 0, duration - 1 / sampling_frequency, len(time_array)
+ )
+ self.ifosd.roll_off = 0
+ self.ifosd.set_from_time_domain_strain(
+ time_domain_strain=time_domain_strain,
+ duration=duration,
+ sampling_frequency=sampling_frequency,
+ )
+
+ frequency_domain_strain, freqs = bilby.core.utils.nfft(
+ time_domain_strain, sampling_frequency
+ )
+
+ self.assertTrue(
+ np.all(
+ self.ifosd.frequency_domain_strain
+ == frequency_domain_strain * self.ifosd.frequency_mask
+ )
+ )
+
+ def test_time_within_data_before(self):
+ self.ifosd.start_time = 3
+ self.ifosd.duration = 2
+ self.assertFalse(self.ifosd.time_within_data(2))
+
+ def test_time_within_data_during(self):
+ self.ifosd.start_time = 3
+ self.ifosd.duration = 2
+ self.assertTrue(self.ifosd.time_within_data(3))
+ self.assertTrue(self.ifosd.time_within_data(4))
+ self.assertTrue(self.ifosd.time_within_data(5))
+
+ def test_time_within_data_after(self):
+ self.ifosd.start_time = 3
+ self.ifosd.duration = 2
+ self.assertFalse(self.ifosd.time_within_data(6))
+
+ def test_time_domain_window_no_roll_off_no_alpha(self):
+ self.ifosd._time_domain_strain = np.array([3])
+ self.ifosd.duration = 5
+ self.ifosd.roll_off = 2
+ expected_window = scipy.signal.windows.tukey(
+ len(self.ifosd._time_domain_strain), alpha=self.ifosd.alpha
+ )
+ self.assertEqual(expected_window, self.ifosd.time_domain_window())
+ self.assertEqual(np.mean(expected_window ** 2), self.ifosd.window_factor)
+
+ def test_time_domain_window_sets_roll_off_directly(self):
+ self.ifosd._time_domain_strain = np.array([3])
+ self.ifosd.duration = 5
+ self.ifosd.roll_off = 2
+ expected_roll_off = 6
+ self.ifosd.time_domain_window(roll_off=expected_roll_off)
+ self.assertEqual(expected_roll_off, self.ifosd.roll_off)
+
+ def test_time_domain_window_sets_roll_off_indirectly(self):
+ self.ifosd._time_domain_strain = np.array([3])
+ self.ifosd.duration = 5
+ self.ifosd.roll_off = 2
+ alpha = 4
+ expected_roll_off = alpha * self.ifosd.duration / 2
+ self.ifosd.time_domain_window(alpha=alpha)
+ self.assertEqual(expected_roll_off, self.ifosd.roll_off)
+
+ def test_time_domain_strain_when_set(self):
+ expected_strain = 5
+ self.ifosd._time_domain_strain = expected_strain
+ self.assertEqual(expected_strain, self.ifosd.time_domain_strain)
+
+ @patch("bilby.core.utils.infft")
+ def test_time_domain_strain_from_frequency_domain_strain(self, m):
+ m.return_value = 5
+ self.ifosd.sampling_frequency = 200
+ self.ifosd.duration = 4
+ self.ifosd.sampling_frequency = 123
+ self.ifosd.frequency_domain_strain = self.ifosd.frequency_array
+ self.assertEqual(m.return_value, self.ifosd.time_domain_strain)
+
+ def test_time_domain_strain_not_set(self):
+ self.ifosd._time_domain_strain = None
+ self.ifosd._frequency_domain_strain = None
+ with self.assertRaises(ValueError):
+ _ = self.ifosd.time_domain_strain
+
+ def test_frequency_domain_strain_when_set(self):
+ self.ifosd.sampling_frequency = 200
+ self.ifosd.duration = 4
+ expected_strain = self.ifosd.frequency_array * self.ifosd.frequency_mask
+ self.ifosd._frequency_domain_strain = expected_strain
+ self.assertTrue(
+ np.array_equal(expected_strain, self.ifosd.frequency_domain_strain)
+ )
+
+ @patch("bilby.core.utils.nfft")
+ def test_frequency_domain_strain_from_frequency_domain_strain(self, m):
+ self.ifosd.start_time = 0
+ self.ifosd.duration = 4
+ self.ifosd.sampling_frequency = 200
+ m.return_value = self.ifosd.frequency_array, self.ifosd.frequency_array
+ self.ifosd._time_domain_strain = self.ifosd.time_array
+ self.assertTrue(
+ np.array_equal(
+ self.ifosd.frequency_array * self.ifosd.frequency_mask,
+ self.ifosd.frequency_domain_strain,
+ )
+ )
+
+ def test_frequency_domain_strain_not_set(self):
+ self.ifosd._time_domain_strain = None
+ self.ifosd._frequency_domain_strain = None
+ with self.assertRaises(ValueError):
+ _ = self.ifosd.frequency_domain_strain
+
+ def test_set_frequency_domain_strain(self):
+ self.ifosd.duration = 4
+ self.ifosd.sampling_frequency = 200
+ self.ifosd.frequency_domain_strain = np.ones(len(self.ifosd.frequency_array))
+ self.assertTrue(
+ np.array_equal(
+ np.ones(len(self.ifosd.frequency_array)),
+ self.ifosd._frequency_domain_strain,
+ )
+ )
+
+ def test_set_frequency_domain_strain_wrong_length(self):
+ self.ifosd.duration = 4
+ self.ifosd.sampling_frequency = 200
+ with self.assertRaises(ValueError):
+ self.ifosd.frequency_domain_strain = np.array([1])
+
+
+class TestInterferometerStrainDataEquals(unittest.TestCase):
+ def setUp(self):
+ self.minimum_frequency = 10
+ self.maximum_frequency = 20
+ self.roll_off = 0.2
+ self.sampling_frequency = 100
+ self.duration = 2
+ self.frequency_array = bilby.utils.create_frequency_series(
+ sampling_frequency=self.sampling_frequency, duration=self.duration
+ )
+ self.strain = self.frequency_array
+ self.ifosd_1 = bilby.gw.detector.InterferometerStrainData(
+ minimum_frequency=self.minimum_frequency,
+ maximum_frequency=self.maximum_frequency,
+ roll_off=self.roll_off,
+ )
+ self.ifosd_2 = bilby.gw.detector.InterferometerStrainData(
+ minimum_frequency=self.minimum_frequency,
+ maximum_frequency=self.maximum_frequency,
+ roll_off=self.roll_off,
+ )
+ self.ifosd_1.set_from_frequency_domain_strain(
+ frequency_domain_strain=self.strain, frequency_array=self.frequency_array
+ )
+ self.ifosd_2.set_from_frequency_domain_strain(
+ frequency_domain_strain=self.strain, frequency_array=self.frequency_array
+ )
+
+ def tearDown(self):
+ del self.minimum_frequency
+ del self.maximum_frequency
+ del self.roll_off
+ del self.sampling_frequency
+ del self.duration
+ del self.frequency_array
+ del self.strain
+ del self.ifosd_1
+ del self.ifosd_2
+
+ def test_eq_true(self):
+ self.assertEqual(self.ifosd_1, self.ifosd_2)
+
+ def test_eq_different_minimum_frequency(self):
+ self.ifosd_1.minimum_frequency -= 1
+ self.assertNotEqual(self.ifosd_1, self.ifosd_2)
+
+ def test_eq_different_maximum_frequency(self):
+ self.ifosd_1.maximum_frequency -= 1
+ self.assertNotEqual(self.ifosd_1, self.ifosd_2)
+
+ def test_eq_different_roll_off(self):
+ self.ifosd_1.roll_off -= 0.1
+ self.assertNotEqual(self.ifosd_1, self.ifosd_2)
+
+ def test_eq_different_window_factor(self):
+ self.ifosd_1.roll_off -= 0.1
+ self.assertNotEqual(self.ifosd_1, self.ifosd_2)
+
+ def test_eq_different_sampling_frequency(self):
+ self.ifosd_1.sampling_frequency *= 2
+ self.assertNotEqual(self.ifosd_1, self.ifosd_2)
+
+ def test_eq_different_sampling_duration(self):
+ self.ifosd_1.duration *= 2
+ self.assertNotEqual(self.ifosd_1, self.ifosd_2)
+
+ def test_eq_different_start_time(self):
+ self.ifosd_1.start_time -= 0.1
+ self.assertNotEqual(self.ifosd_1, self.ifosd_2)
+
+ def test_eq_different_frequency_array(self):
+ new_frequency_array = bilby.utils.create_frequency_series(
+ sampling_frequency=self.sampling_frequency / 2, duration=self.duration * 2
+ )
+ self.ifosd_1.frequency_array = new_frequency_array
+ self.assertNotEqual(self.ifosd_1, self.ifosd_2)
+
+ def test_eq_different_frequency_domain_strain(self):
+ new_strain = bilby.utils.create_frequency_series(
+ sampling_frequency=self.sampling_frequency / 2, duration=self.duration * 2
+ )
+ self.ifosd_1._frequency_domain_strain = new_strain
+ self.assertNotEqual(self.ifosd_1, self.ifosd_2)
+
+ def test_eq_different_time_array(self):
+ new_time_array = bilby.utils.create_time_series(
+ sampling_frequency=self.sampling_frequency / 2, duration=self.duration * 2
+ )
+ self.ifosd_1.time_array = new_time_array
+ self.assertNotEqual(self.ifosd_1, self.ifosd_2)
+
+ def test_eq_different_time_domain_strain(self):
+ new_strain = bilby.utils.create_time_series(
+ sampling_frequency=self.sampling_frequency / 2, duration=self.duration * 2
+ )
+ self.ifosd_1._time_domain_strain = new_strain
+ self.assertNotEqual(self.ifosd_1, self.ifosd_2)
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/gw/eos/__init__.py b/test/gw/eos/__init__.py
new file mode 100644
index 0000000000000000000000000000000000000000..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391
diff --git a/test/gw_eos_test.py b/test/gw/eos/eos_test.py
similarity index 100%
rename from test/gw_eos_test.py
rename to test/gw/eos/eos_test.py
diff --git a/test/gw_example_test.py b/test/gw/example_test.py
similarity index 100%
rename from test/gw_example_test.py
rename to test/gw/example_test.py
diff --git a/test/gw_likelihood_test.py b/test/gw/likelihood_test.py
similarity index 100%
rename from test/gw_likelihood_test.py
rename to test/gw/likelihood_test.py
diff --git a/test/make_standard_data.py b/test/gw/make_standard_data.py
similarity index 100%
rename from test/make_standard_data.py
rename to test/gw/make_standard_data.py
diff --git a/test/noise_realisation_test.py b/test/gw/noise_realisation_test.py
similarity index 100%
rename from test/noise_realisation_test.py
rename to test/gw/noise_realisation_test.py
diff --git a/test/other_test.py b/test/gw/other_test.py
similarity index 100%
rename from test/other_test.py
rename to test/gw/other_test.py
diff --git a/test/gw_plot_test.py b/test/gw/plot_test.py
similarity index 100%
rename from test/gw_plot_test.py
rename to test/gw/plot_test.py
diff --git a/test/gw/prior_files/GW150914_testing_skymap.fits b/test/gw/prior_files/GW150914_testing_skymap.fits
new file mode 100644
index 0000000000000000000000000000000000000000..81c03413aa124da3f465ca84597070b35cf92ac4
Binary files /dev/null and b/test/gw/prior_files/GW150914_testing_skymap.fits differ
diff --git a/test/gw/prior_files/aligned_spins_bbh.prior b/test/gw/prior_files/aligned_spins_bbh.prior
new file mode 100644
index 0000000000000000000000000000000000000000..4a15f7a3a14f85ee65385d6ca30263ed7c5c6ca9
--- /dev/null
+++ b/test/gw/prior_files/aligned_spins_bbh.prior
@@ -0,0 +1,16 @@
+# These are the default priors we use for BBH systems.
+# Note that you may wish to use more specific mass and distance parameters.
+# These commands are all known to bilby.gw.prior.
+# Lines beginning "#" are ignored.
+mass_1 = Constraint(name='mass_1', minimum=5, maximum=100)
+mass_2 = Constraint(name='mass_2', minimum=5, maximum=100)
+mass_ratio = Uniform(name='mass_ratio', minimum=0.125, maximum=1)
+chirp_mass = Uniform(name='chirp_mass', minimum=25, maximum=100)
+luminosity_distance = bilby.gw.prior.UniformSourceFrame(name='luminosity_distance', minimum=1e2, maximum=5e3)
+dec = Cosine(name='dec')
+ra = Uniform(name='ra', minimum=0, maximum=2 * np.pi, boundary='periodic')
+theta_jn = Sine(name='theta_jn')
+psi = Uniform(name='psi', minimum=0, maximum=np.pi, boundary='periodic')
+phase = Uniform(name='phase', minimum=0, maximum=2 * np.pi, boundary='periodic')
+chi_1 = bilby.gw.prior.AlignedSpin(name='chi_1', a_prior=Uniform(minimum=0, maximum=0.99))
+chi_2 = bilby.gw.prior.AlignedSpin(name='chi_2', a_prior=Uniform(minimum=0, maximum=0.99))
diff --git a/test/gw/prior_files/aligned_spins_bbh_tides_on.prior b/test/gw/prior_files/aligned_spins_bbh_tides_on.prior
new file mode 100644
index 0000000000000000000000000000000000000000..4fc71953eacb34b364e6a55b6a3d521ee7609b81
--- /dev/null
+++ b/test/gw/prior_files/aligned_spins_bbh_tides_on.prior
@@ -0,0 +1,18 @@
+# These are the default priors we use for BBH systems.
+# Note that you may wish to use more specific mass and distance parameters.
+# These commands are all known to bilby.gw.prior.
+# Lines beginning "#" are ignored.
+mass_1 = Constraint(name='mass_1', minimum=5, maximum=100)
+mass_2 = Constraint(name='mass_2', minimum=5, maximum=100)
+mass_ratio = Uniform(name='mass_ratio', minimum=0.125, maximum=1)
+chirp_mass = Uniform(name='chirp_mass', minimum=25, maximum=100)
+luminosity_distance = bilby.gw.prior.UniformSourceFrame(name='luminosity_distance', minimum=1e2, maximum=5e3)
+dec = Cosine(name='dec')
+ra = Uniform(name='ra', minimum=0, maximum=2 * np.pi, boundary='periodic')
+theta_jn = Sine(name='theta_jn')
+psi = Uniform(name='psi', minimum=0, maximum=np.pi, boundary='periodic')
+phase = Uniform(name='phase', minimum=0, maximum=2 * np.pi, boundary='periodic')
+chi_1 = bilby.gw.prior.AlignedSpin(name='chi_1', a_prior=Uniform(minimum=0, maximum=0.99))
+chi_2 = bilby.gw.prior.AlignedSpin(name='chi_2', a_prior=Uniform(minimum=0, maximum=0.99))
+lambda_1 = Uniform(name='lambda_1', minimum=0, maximum=5000)
+lambda_2 = Uniform(name='lambda_2', minimum=0, maximum=5000)
diff --git a/test/gw/prior_files/aligned_spins_bns.prior b/test/gw/prior_files/aligned_spins_bns.prior
new file mode 100644
index 0000000000000000000000000000000000000000..a524de77759b93fbaa7772b17fce573d35be69bd
--- /dev/null
+++ b/test/gw/prior_files/aligned_spins_bns.prior
@@ -0,0 +1,16 @@
+# These are the default priors we use for BNS systems.
+# Note that you may wish to use more specific mass and distance parameters.
+# These commands are all known to bilby.gw.prior.
+# Lines beginning "#" are ignored.
+mass_1 = Constraint(name='mass_1', minimum=0.5, maximum=5)
+mass_2 = Constraint(name='mass_2', minimum=0.5, maximum=5)
+mass_ratio = Uniform(name='mass_ratio', minimum=0.125, maximum=1)
+chirp_mass = Uniform(name='chirp_mass', minimum=0.4, maximum=4.4)
+luminosity_distance = bilby.gw.prior.UniformSourceFrame(name='luminosity_distance', minimum=1e2, maximum=5e3)
+dec = Cosine(name='dec')
+ra = Uniform(name='ra', minimum=0, maximum=2 * np.pi, boundary='periodic')
+theta_jn = Sine(name='theta_jn')
+psi = Uniform(name='psi', minimum=0, maximum=np.pi, boundary='periodic')
+phase = Uniform(name='phase', minimum=0, maximum=2 * np.pi, boundary='periodic')
+chi_1 = bilby.gw.prior.AlignedSpin(name='chi_1', a_prior=Uniform(minimum=0, maximum=0.99))
+chi_2 = bilby.gw.prior.AlignedSpin(name='chi_2', a_prior=Uniform(minimum=0, maximum=0.99))
diff --git a/test/gw/prior_files/aligned_spins_bns_tides_on.prior b/test/gw/prior_files/aligned_spins_bns_tides_on.prior
new file mode 100644
index 0000000000000000000000000000000000000000..dcb30189b9c2867f35c98f8c9580b62c491d3dd4
--- /dev/null
+++ b/test/gw/prior_files/aligned_spins_bns_tides_on.prior
@@ -0,0 +1,18 @@
+# These are the default priors we use for BNS systems.
+# Note that you may wish to use more specific mass and distance parameters.
+# These commands are all known to bilby.gw.prior.
+# Lines beginning "#" are ignored.
+mass_1 = Constraint(name='mass_1', minimum=0.5, maximum=5)
+mass_2 = Constraint(name='mass_2', minimum=0.5, maximum=5)
+mass_ratio = Uniform(name='mass_ratio', minimum=0.125, maximum=1)
+chirp_mass = Uniform(name='chirp_mass', minimum=0.4, maximum=4.4)
+luminosity_distance = bilby.gw.prior.UniformSourceFrame(name='luminosity_distance', minimum=1e2, maximum=5e3)
+dec = Cosine(name='dec')
+ra = Uniform(name='ra', minimum=0, maximum=2 * np.pi, boundary='periodic')
+theta_jn = Sine(name='theta_jn')
+psi = Uniform(name='psi', minimum=0, maximum=np.pi, boundary='periodic')
+phase = Uniform(name='phase', minimum=0, maximum=2 * np.pi, boundary='periodic')
+chi_1 = bilby.gw.prior.AlignedSpin(name='chi_1', a_prior=Uniform(minimum=0, maximum=0.99))
+chi_2 = bilby.gw.prior.AlignedSpin(name='chi_2', a_prior=Uniform(minimum=0, maximum=0.99))
+lambda_1 = Uniform(name='lambda_1', minimum=0, maximum=5000)
+lambda_2 = Uniform(name='lambda_2', minimum=0, maximum=5000)
diff --git a/test/gw/prior_files/precessing_spins_bbh.prior b/test/gw/prior_files/precessing_spins_bbh.prior
new file mode 100644
index 0000000000000000000000000000000000000000..27094d689666e2a6e195e36f4b795c9feb3347c3
--- /dev/null
+++ b/test/gw/prior_files/precessing_spins_bbh.prior
@@ -0,0 +1,20 @@
+# These are the default priors we use for BBH systems.
+# Note that you may wish to use more specific mass and distance parameters.
+# These commands are all known to bilby.gw.prior.
+# Lines beginning "#" are ignored.
+mass_1 = Constraint(name='mass_1', minimum=5, maximum=100)
+mass_2 = Constraint(name='mass_2', minimum=5, maximum=100)
+mass_ratio = Uniform(name='mass_ratio', minimum=0.125, maximum=1)
+chirp_mass = Uniform(name='chirp_mass', minimum=25, maximum=100)
+luminosity_distance = bilby.gw.prior.UniformSourceFrame(name='luminosity_distance', minimum=1e2, maximum=5e3)
+dec = Cosine(name='dec')
+ra = Uniform(name='ra', minimum=0, maximum=2 * np.pi, boundary='periodic')
+theta_jn = Sine(name='theta_jn')
+psi = Uniform(name='psi', minimum=0, maximum=np.pi, boundary='periodic')
+phase = Uniform(name='phase', minimum=0, maximum=2 * np.pi, boundary='periodic')
+a_1 = Uniform(name='a_1', minimum=0, maximum=0.99)
+a_2 = Uniform(name='a_2', minimum=0, maximum=0.99)
+tilt_1 = Sine(name='tilt_1')
+tilt_2 = Sine(name='tilt_2')
+phi_12 = Uniform(name='phi_12', minimum=0, maximum=2 * np.pi, boundary='periodic')
+phi_jl = Uniform(name='phi_jl', minimum=0, maximum=2 * np.pi, boundary='periodic')
diff --git a/test/gw/prior_files/precessing_spins_bbh_tides_on.prior b/test/gw/prior_files/precessing_spins_bbh_tides_on.prior
new file mode 100644
index 0000000000000000000000000000000000000000..81da0482f26708a1cf5cb5d11fdd61f6fc2654b4
--- /dev/null
+++ b/test/gw/prior_files/precessing_spins_bbh_tides_on.prior
@@ -0,0 +1,22 @@
+# These are the default priors we use for BBH systems.
+# Note that you may wish to use more specific mass and distance parameters.
+# These commands are all known to bilby.gw.prior.
+# Lines beginning "#" are ignored.
+mass_1 = Constraint(name='mass_1', minimum=5, maximum=100)
+mass_2 = Constraint(name='mass_2', minimum=5, maximum=100)
+mass_ratio = Uniform(name='mass_ratio', minimum=0.125, maximum=1)
+chirp_mass = Uniform(name='chirp_mass', minimum=25, maximum=100)
+luminosity_distance = bilby.gw.prior.UniformSourceFrame(name='luminosity_distance', minimum=1e2, maximum=5e3)
+dec = Cosine(name='dec')
+ra = Uniform(name='ra', minimum=0, maximum=2 * np.pi, boundary='periodic')
+theta_jn = Sine(name='theta_jn')
+psi = Uniform(name='psi', minimum=0, maximum=np.pi, boundary='periodic')
+phase = Uniform(name='phase', minimum=0, maximum=2 * np.pi, boundary='periodic')
+a_1 = Uniform(name='a_1', minimum=0, maximum=0.99)
+a_2 = Uniform(name='a_2', minimum=0, maximum=0.99)
+tilt_1 = Sine(name='tilt_1')
+tilt_2 = Sine(name='tilt_2')
+phi_12 = Uniform(name='phi_12', minimum=0, maximum=2 * np.pi, boundary='periodic')
+phi_jl = Uniform(name='phi_jl', minimum=0, maximum=2 * np.pi, boundary='periodic')
+lambda_1 = Uniform(name='lambda_1', minimum=0, maximum=5000)
+lambda_2 = Uniform(name='lambda_2', minimum=0, maximum=5000)
diff --git a/test/gw/prior_files/precessing_spins_bns.prior b/test/gw/prior_files/precessing_spins_bns.prior
new file mode 100644
index 0000000000000000000000000000000000000000..cb663dbbe1eb90badc3dcb066ecef85863a26801
--- /dev/null
+++ b/test/gw/prior_files/precessing_spins_bns.prior
@@ -0,0 +1,20 @@
+# These are the default priors we use for BNS systems.
+# Note that you may wish to use more specific mass and distance parameters.
+# These commands are all known to bilby.gw.prior.
+# Lines beginning "#" are ignored.
+mass_1 = Constraint(name='mass_1', minimum=0.5, maximum=5)
+mass_2 = Constraint(name='mass_2', minimum=0.5, maximum=5)
+mass_ratio = Uniform(name='mass_ratio', minimum=0.125, maximum=1)
+chirp_mass = Uniform(name='chirp_mass', minimum=0.4, maximum=4.4)
+luminosity_distance = bilby.gw.prior.UniformSourceFrame(name='luminosity_distance', minimum=1e2, maximum=5e3)
+dec = Cosine(name='dec')
+ra = Uniform(name='ra', minimum=0, maximum=2 * np.pi, boundary='periodic')
+theta_jn = Sine(name='theta_jn')
+psi = Uniform(name='psi', minimum=0, maximum=np.pi, boundary='periodic')
+phase = Uniform(name='phase', minimum=0, maximum=2 * np.pi, boundary='periodic')
+a_1 = Uniform(name='a_1', minimum=0, maximum=0.99)
+a_2 = Uniform(name='a_2', minimum=0, maximum=0.99)
+tilt_1 = Sine(name='tilt_1')
+tilt_2 = Sine(name='tilt_2')
+phi_12 = Uniform(name='phi_12', minimum=0, maximum=2 * np.pi, boundary='periodic')
+phi_jl = Uniform(name='phi_jl', minimum=0, maximum=2 * np.pi, boundary='periodic')
diff --git a/test/gw/prior_files/precessing_spins_bns_tides_on.prior b/test/gw/prior_files/precessing_spins_bns_tides_on.prior
new file mode 100644
index 0000000000000000000000000000000000000000..d0c7e875c7d9ab8ad9dfd0fb1b41dc2562d43855
--- /dev/null
+++ b/test/gw/prior_files/precessing_spins_bns_tides_on.prior
@@ -0,0 +1,22 @@
+# These are the default priors we use for BNS systems.
+# Note that you may wish to use more specific mass and distance parameters.
+# These commands are all known to bilby.gw.prior.
+# Lines beginning "#" are ignored.
+mass_1 = Constraint(name='mass_1', minimum=0.5, maximum=5)
+mass_2 = Constraint(name='mass_2', minimum=0.5, maximum=5)
+mass_ratio = Uniform(name='mass_ratio', minimum=0.125, maximum=1)
+chirp_mass = Uniform(name='chirp_mass', minimum=0.4, maximum=4.4)
+luminosity_distance = bilby.gw.prior.UniformSourceFrame(name='luminosity_distance', minimum=1e2, maximum=5e3)
+dec = Cosine(name='dec')
+ra = Uniform(name='ra', minimum=0, maximum=2 * np.pi, boundary='periodic')
+theta_jn = Sine(name='theta_jn')
+psi = Uniform(name='psi', minimum=0, maximum=np.pi, boundary='periodic')
+phase = Uniform(name='phase', minimum=0, maximum=2 * np.pi, boundary='periodic')
+a_1 = Uniform(name='a_1', minimum=0, maximum=0.99)
+a_2 = Uniform(name='a_2', minimum=0, maximum=0.99)
+tilt_1 = Sine(name='tilt_1')
+tilt_2 = Sine(name='tilt_2')
+phi_12 = Uniform(name='phi_12', minimum=0, maximum=2 * np.pi, boundary='periodic')
+phi_jl = Uniform(name='phi_jl', minimum=0, maximum=2 * np.pi, boundary='periodic')
+lambda_1 = Uniform(name='lambda_1', minimum=0, maximum=5000)
+lambda_2 = Uniform(name='lambda_2', minimum=0, maximum=5000)
diff --git a/test/gw/prior_files/prior_with_floats.prior b/test/gw/prior_files/prior_with_floats.prior
new file mode 100644
index 0000000000000000000000000000000000000000..d062cf553ecb8aa0eea49c151f5f4f4097afe7ff
--- /dev/null
+++ b/test/gw/prior_files/prior_with_floats.prior
@@ -0,0 +1,2 @@
+mass_1 = Uniform(name='mass_1', minimum=5, maximum=100, unit='$M_{\odot}$', boundary=None)
+mass_2 = 20
diff --git a/test/gw/prior_files/prior_with_parentheses.prior b/test/gw/prior_files/prior_with_parentheses.prior
new file mode 100644
index 0000000000000000000000000000000000000000..5296497f70f5b51ac0fde4c6633a8a82e9d5ca44
--- /dev/null
+++ b/test/gw/prior_files/prior_with_parentheses.prior
@@ -0,0 +1,2 @@
+logA = Uniform(name='logA', minimum=10, maximum=20, latex_label=r'$\log(A_{0})$')
+logB = Uniform(name='logB', minimum=10, maximum=20, latex_label='$\log(B_{0})$')
diff --git a/test/gw_prior_test.py b/test/gw/prior_test.py
similarity index 100%
rename from test/gw_prior_test.py
rename to test/gw/prior_test.py
diff --git a/test/gw_result_test.py b/test/gw/result_test.py
similarity index 100%
rename from test/gw_result_test.py
rename to test/gw/result_test.py
diff --git a/test/sample_from_the_prior_test.py b/test/gw/sample_from_the_prior_test.py
similarity index 100%
rename from test/sample_from_the_prior_test.py
rename to test/gw/sample_from_the_prior_test.py
diff --git a/test/gw/sampler/__init__.py b/test/gw/sampler/__init__.py
new file mode 100644
index 0000000000000000000000000000000000000000..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391
diff --git a/test/gw/sampler/proposal_test.py b/test/gw/sampler/proposal_test.py
new file mode 100644
index 0000000000000000000000000000000000000000..282ea61f6cc0c653e523bf242c9b446a8ae53212
--- /dev/null
+++ b/test/gw/sampler/proposal_test.py
@@ -0,0 +1,132 @@
+import unittest
+import mock
+
+import numpy as np
+
+import bilby.gw.sampler.proposal
+from bilby.core import prior
+from bilby.core.sampler import proposal
+
+
+class TestSkyLocationWanderJump(unittest.TestCase):
+ def setUp(self):
+ self.priors = prior.PriorDict(
+ dict(
+ ra=prior.Uniform(minimum=0.0, maximum=2 * np.pi, boundary="periodic"),
+ dec=prior.Uniform(minimum=0.0, maximum=np.pi, boundary="reflective"),
+ )
+ )
+ self.jump_proposal = bilby.gw.sampler.proposal.SkyLocationWanderJump(
+ priors=self.priors
+ )
+
+ def tearDown(self):
+ del self.priors
+ del self.jump_proposal
+
+ def test_jump_proposal_call_without_inverse_temperature(self):
+ with mock.patch("random.gauss") as m:
+ m.return_value = 1
+ sample = proposal.Sample(dict(ra=0.2, dec=-0.5))
+ expected = proposal.Sample(dict(ra=1.2, dec=0.5))
+ new_sample = self.jump_proposal(sample)
+ for key, value in new_sample.items():
+ self.assertAlmostEqual(expected[key], value)
+ m.assert_called_with(0, 1.0 / 2 / np.pi)
+
+ def test_jump_proposal_call_with_inverse_temperature(self):
+ with mock.patch("random.gauss") as m:
+ m.return_value = 1
+ sample = proposal.Sample(dict(ra=0.2, dec=-0.5))
+ expected = proposal.Sample(dict(ra=1.2, dec=0.5))
+ new_sample = self.jump_proposal(sample, inverse_temperature=2.0)
+ for key, value in new_sample.items():
+ self.assertAlmostEqual(expected[key], value)
+ m.assert_called_with(0, np.sqrt(1 / 2.0) / 2 / np.pi)
+
+
+class TestCorrelatedPolarisationPhaseJump(unittest.TestCase):
+ def setUp(self):
+ self.priors = prior.PriorDict(
+ dict(
+ phase=prior.Uniform(minimum=0.0, maximum=2 * np.pi),
+ psi=prior.Uniform(minimum=0.0, maximum=np.pi),
+ )
+ )
+ self.jump_proposal = bilby.gw.sampler.proposal.CorrelatedPolarisationPhaseJump(
+ priors=self.priors
+ )
+
+ def tearDown(self):
+ del self.priors
+ del self.jump_proposal
+
+ def test_jump_proposal_call_case_1(self):
+ with mock.patch("random.random") as m:
+ m.return_value = 0.3
+ sample = proposal.Sample(dict(phase=0.2, psi=0.5))
+ alpha = 3.0 * np.pi * 0.3
+ beta = 0.3
+ expected = proposal.Sample(
+ dict(phase=0.5 * (alpha - beta), psi=0.5 * (alpha + beta))
+ )
+ self.assertEqual(expected, self.jump_proposal(sample, coordinates=None))
+
+ def test_jump_proposal_call_case_2(self):
+ with mock.patch("random.random") as m:
+ m.return_value = 0.7
+ sample = proposal.Sample(dict(phase=0.2, psi=0.5))
+ alpha = 0.7
+ beta = 3.0 * np.pi * 0.7 - 2 * np.pi
+ expected = proposal.Sample(
+ dict(phase=0.5 * (alpha - beta), psi=0.5 * (alpha + beta))
+ )
+ self.assertEqual(expected, self.jump_proposal(sample))
+
+
+class TestPolarisationPhaseJump(unittest.TestCase):
+ def setUp(self):
+ self.priors = prior.PriorDict(
+ dict(
+ phase=prior.Uniform(minimum=0.0, maximum=2 * np.pi),
+ psi=prior.Uniform(minimum=0.0, maximum=np.pi),
+ )
+ )
+ self.jump_proposal = bilby.gw.sampler.proposal.PolarisationPhaseJump(
+ priors=self.priors
+ )
+
+ def tearDown(self):
+ del self.priors
+ del self.jump_proposal
+
+ def test_jump_proposal_call(self):
+ sample = proposal.Sample(dict(phase=0.2, psi=0.5))
+ expected = proposal.Sample(dict(phase=0.2 + np.pi, psi=0.5 + np.pi / 2))
+ self.assertEqual(expected, self.jump_proposal(sample))
+
+
+class TestDrawFlatPrior(unittest.TestCase):
+ def setUp(self):
+ self.priors = prior.PriorDict(
+ dict(
+ phase=prior.Uniform(minimum=0.0, maximum=2 * np.pi),
+ psi=prior.Cosine(minimum=0.0, maximum=np.pi),
+ )
+ )
+ self.jump_proposal = proposal.DrawFlatPrior(priors=self.priors)
+
+ def tearDown(self):
+ del self.priors
+ del self.jump_proposal
+
+ def test_jump_proposal_call(self):
+ with mock.patch("bilby.core.prior.Uniform.sample") as m:
+ m.return_value = 0.3
+ sample = proposal.Sample(dict(phase=0.2, psi=0.5))
+ expected = proposal.Sample(dict(phase=0.3, psi=0.3))
+ self.assertEqual(expected, self.jump_proposal(sample))
+
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/test/gw_source_test.py b/test/gw/source_test.py
similarity index 100%
rename from test/gw_source_test.py
rename to test/gw/source_test.py
diff --git a/test/gw_utils_test.py b/test/gw/utils_test.py
similarity index 100%
rename from test/gw_utils_test.py
rename to test/gw/utils_test.py
diff --git a/test/waveform_generator_test.py b/test/gw/waveform_generator_test.py
similarity index 100%
rename from test/waveform_generator_test.py
rename to test/gw/waveform_generator_test.py
diff --git a/test/hyper/__init__.py b/test/hyper/__init__.py
new file mode 100644
index 0000000000000000000000000000000000000000..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391
diff --git a/test/hyper_pe_test.py b/test/hyper/hyper_pe_test.py
similarity index 100%
rename from test/hyper_pe_test.py
rename to test/hyper/hyper_pe_test.py
diff --git a/test/sampler_test.py b/test/sampler_test.py
deleted file mode 100644
index f03fc97d00265993dd1375825139e213add14ad7..0000000000000000000000000000000000000000
--- a/test/sampler_test.py
+++ /dev/null
@@ -1,1057 +0,0 @@
-from __future__ import absolute_import
-import bilby
-from bilby.core import prior
-import unittest
-from mock import MagicMock
-import numpy as np
-import os
-import shutil
-import copy
-
-
-class TestSampler(unittest.TestCase):
- def setUp(self):
- likelihood = bilby.core.likelihood.Likelihood()
- likelihood.parameters = dict(a=1, b=2, c=3)
- delta_prior = prior.DeltaFunction(peak=0)
- delta_prior.rescale = MagicMock(return_value=prior.DeltaFunction(peak=1))
- delta_prior.prob = MagicMock(return_value=1)
- delta_prior.sample = MagicMock(return_value=0)
- uniform_prior = prior.Uniform(0, 1)
- uniform_prior.rescale = MagicMock(return_value=prior.Uniform(0, 2))
- uniform_prior.prob = MagicMock(return_value=1)
- uniform_prior.sample = MagicMock(return_value=0.5)
-
- priors = dict(a=delta_prior, b="string", c=uniform_prior)
- likelihood.log_likelihood_ratio = MagicMock(return_value=1)
- likelihood.log_likelihood = MagicMock(return_value=2)
- test_directory = "test_directory"
- if os.path.isdir(test_directory):
- os.rmdir(test_directory)
- self.sampler = bilby.core.sampler.Sampler(
- likelihood=likelihood,
- priors=priors,
- outdir=test_directory,
- use_ratio=False,
- skip_import_verification=True,
- )
-
- def tearDown(self):
- del self.sampler
-
- def test_search_parameter_keys(self):
- expected_search_parameter_keys = ["c"]
- self.assertListEqual(
- self.sampler.search_parameter_keys, expected_search_parameter_keys
- )
-
- def test_fixed_parameter_keys(self):
- expected_fixed_parameter_keys = ["a"]
- self.assertListEqual(
- self.sampler.fixed_parameter_keys, expected_fixed_parameter_keys
- )
-
- def test_ndim(self):
- self.assertEqual(self.sampler.ndim, 1)
-
- def test_kwargs(self):
- self.assertDictEqual(self.sampler.kwargs, {})
-
- def test_label(self):
- self.assertEqual(self.sampler.label, "label")
-
- def test_prior_transform_transforms_search_parameter_keys(self):
- self.sampler.prior_transform([0])
- expected_prior = prior.Uniform(0, 1)
- self.assertListEqual(
- [self.sampler.priors["c"].minimum, self.sampler.priors["c"].maximum],
- [expected_prior.minimum, expected_prior.maximum],
- )
-
- def test_prior_transform_does_not_transform_fixed_parameter_keys(self):
- self.sampler.prior_transform([0])
- self.assertEqual(
- self.sampler.priors["a"].peak, prior.DeltaFunction(peak=0).peak
- )
-
- def test_log_prior(self):
- self.assertEqual(self.sampler.log_prior({1}), 0.0)
-
- def test_log_likelihood_with_use_ratio(self):
- self.sampler.use_ratio = True
- self.assertEqual(self.sampler.log_likelihood([0]), 1)
-
- def test_log_likelihood_without_use_ratio(self):
- self.sampler.use_ratio = False
- self.assertEqual(self.sampler.log_likelihood([0]), 2)
-
- def test_log_likelihood_correctly_sets_parameters(self):
- expected_dict = dict(a=0, b=2, c=0)
- _ = self.sampler.log_likelihood([0])
- self.assertDictEqual(self.sampler.likelihood.parameters, expected_dict)
-
- def test_get_random_draw(self):
- self.assertEqual(self.sampler.get_random_draw_from_prior(), np.array([0.5]))
-
- def test_base_run_sampler(self):
- sampler_copy = copy.copy(self.sampler)
- self.sampler.run_sampler()
- self.assertDictEqual(sampler_copy.__dict__, self.sampler.__dict__)
-
-
-class TestCPNest(unittest.TestCase):
- def setUp(self):
- self.likelihood = MagicMock()
- self.priors = bilby.core.prior.PriorDict(
- dict(a=bilby.core.prior.Uniform(0, 1), b=bilby.core.prior.Uniform(0, 1))
- )
- self.sampler = bilby.core.sampler.Cpnest(
- self.likelihood,
- self.priors,
- outdir="outdir",
- label="label",
- use_ratio=False,
- plot=False,
- skip_import_verification=True,
- )
-
- def tearDown(self):
- del self.likelihood
- del self.priors
- del self.sampler
-
- def test_default_kwargs(self):
- expected = dict(
- verbose=3,
- nthreads=1,
- nlive=500,
- maxmcmc=1000,
- seed=None,
- poolsize=100,
- nhamiltonian=0,
- resume=True,
- output="outdir/cpnest_label/",
- proposals=None,
- n_periodic_checkpoint=8000,
- )
- self.assertDictEqual(expected, self.sampler.kwargs)
-
- def test_translate_kwargs(self):
- expected = dict(
- verbose=3,
- nthreads=1,
- nlive=250,
- maxmcmc=1000,
- seed=None,
- poolsize=100,
- nhamiltonian=0,
- resume=True,
- output="outdir/cpnest_label/",
- proposals=None,
- n_periodic_checkpoint=8000,
- )
- for equiv in bilby.core.sampler.base_sampler.NestedSampler.npoints_equiv_kwargs:
- new_kwargs = self.sampler.kwargs.copy()
- del new_kwargs["nlive"]
- new_kwargs[equiv] = 250
- self.sampler.kwargs = new_kwargs
- self.assertDictEqual(expected, self.sampler.kwargs)
-
-
-class TestDynesty(unittest.TestCase):
- def setUp(self):
- self.likelihood = MagicMock()
- self.priors = bilby.core.prior.PriorDict(
- dict(a=bilby.core.prior.Uniform(0, 1), b=bilby.core.prior.Uniform(0, 1))
- )
- self.sampler = bilby.core.sampler.Dynesty(
- self.likelihood,
- self.priors,
- outdir="outdir",
- label="label",
- use_ratio=False,
- plot=False,
- skip_import_verification=True,
- )
-
- def tearDown(self):
- del self.likelihood
- del self.priors
- del self.sampler
-
- def test_default_kwargs(self):
- expected = dict(
- bound="multi",
- sample="rwalk",
- periodic=None,
- reflective=None,
- verbose=True,
- check_point_delta_t=600,
- nlive=1000,
- first_update=None,
- npdim=None,
- rstate=None,
- queue_size=1,
- pool=None,
- use_pool=None,
- live_points=None,
- logl_args=None,
- logl_kwargs=None,
- ptform_args=None,
- ptform_kwargs=None,
- enlarge=1.5,
- bootstrap=None,
- vol_dec=0.5,
- vol_check=8.0,
- facc=0.2,
- slices=5,
- dlogz=0.1,
- maxiter=None,
- maxcall=None,
- logl_max=np.inf,
- add_live=True,
- print_progress=True,
- save_bounds=False,
- walks=100,
- update_interval=600,
- print_func="func",
- n_effective=None,
- maxmcmc=5000,
- nact=5,
- )
- self.sampler.kwargs[
- "print_func"
- ] = "func" # set this manually as this is not testable otherwise
- # DictEqual can't handle lists so we check these separately
- self.assertEqual([], self.sampler.kwargs["periodic"])
- self.assertEqual([], self.sampler.kwargs["reflective"])
- self.sampler.kwargs["periodic"] = expected["periodic"]
- self.sampler.kwargs["reflective"] = expected["reflective"]
- for key in self.sampler.kwargs.keys():
- print(
- "key={}, expected={}, actual={}".format(
- key, expected[key], self.sampler.kwargs[key]
- )
- )
- self.assertDictEqual(expected, self.sampler.kwargs)
-
- def test_translate_kwargs(self):
- expected = dict(
- bound="multi",
- sample="rwalk",
- periodic=[],
- reflective=[],
- verbose=True,
- check_point_delta_t=600,
- nlive=1000,
- first_update=None,
- npdim=None,
- rstate=None,
- queue_size=1,
- pool=None,
- use_pool=None,
- live_points=None,
- logl_args=None,
- logl_kwargs=None,
- ptform_args=None,
- ptform_kwargs=None,
- enlarge=1.5,
- bootstrap=None,
- vol_dec=0.5,
- vol_check=8.0,
- facc=0.2,
- slices=5,
- dlogz=0.1,
- maxiter=None,
- maxcall=None,
- logl_max=np.inf,
- add_live=True,
- print_progress=True,
- save_bounds=False,
- walks=100,
- update_interval=600,
- print_func="func",
- n_effective=None,
- maxmcmc=5000,
- nact=5,
- )
-
- for equiv in bilby.core.sampler.base_sampler.NestedSampler.npoints_equiv_kwargs:
- new_kwargs = self.sampler.kwargs.copy()
- del new_kwargs["nlive"]
- new_kwargs[equiv] = 1000
- self.sampler.kwargs = new_kwargs
- self.sampler.kwargs[
- "print_func"
- ] = "func" # set this manually as this is not testable otherwise
- self.assertDictEqual(expected, self.sampler.kwargs)
-
- def test_prior_boundary(self):
- self.priors["a"] = bilby.core.prior.Prior(boundary="periodic")
- self.priors["b"] = bilby.core.prior.Prior(boundary="reflective")
- self.priors["c"] = bilby.core.prior.Prior(boundary=None)
- self.priors["d"] = bilby.core.prior.Prior(boundary="reflective")
- self.priors["e"] = bilby.core.prior.Prior(boundary="periodic")
- self.sampler = bilby.core.sampler.Dynesty(
- self.likelihood,
- self.priors,
- outdir="outdir",
- label="label",
- use_ratio=False,
- plot=False,
- skip_import_verification=True,
- )
- self.assertEqual([0, 4], self.sampler.kwargs["periodic"])
- self.assertEqual(self.sampler._periodic, self.sampler.kwargs["periodic"])
- self.assertEqual([1, 3], self.sampler.kwargs["reflective"])
- self.assertEqual(self.sampler._reflective, self.sampler.kwargs["reflective"])
-
-
-class TestEmcee(unittest.TestCase):
- def setUp(self):
- self.likelihood = MagicMock()
- self.priors = bilby.core.prior.PriorDict(
- dict(a=bilby.core.prior.Uniform(0, 1), b=bilby.core.prior.Uniform(0, 1))
- )
- self.sampler = bilby.core.sampler.Emcee(
- self.likelihood,
- self.priors,
- outdir="outdir",
- label="label",
- use_ratio=False,
- plot=False,
- skip_import_verification=True,
- )
-
- def tearDown(self):
- del self.likelihood
- del self.priors
- del self.sampler
-
- def test_default_kwargs(self):
- expected = dict(
- nwalkers=500,
- a=2,
- args=[],
- kwargs={},
- postargs=None,
- pool=None,
- live_dangerously=False,
- runtime_sortingfn=None,
- lnprob0=None,
- rstate0=None,
- blobs0=None,
- iterations=100,
- thin=1,
- storechain=True,
- mh_proposal=None,
- )
- self.assertDictEqual(expected, self.sampler.kwargs)
-
- def test_translate_kwargs(self):
- expected = dict(
- nwalkers=100,
- a=2,
- args=[],
- kwargs={},
- postargs=None,
- pool=None,
- live_dangerously=False,
- runtime_sortingfn=None,
- lnprob0=None,
- rstate0=None,
- blobs0=None,
- iterations=100,
- thin=1,
- storechain=True,
- mh_proposal=None,
- )
- for equiv in bilby.core.sampler.base_sampler.MCMCSampler.nwalkers_equiv_kwargs:
- new_kwargs = self.sampler.kwargs.copy()
- del new_kwargs["nwalkers"]
- new_kwargs[equiv] = 100
- self.sampler.kwargs = new_kwargs
- self.assertDictEqual(expected, self.sampler.kwargs)
-
-
-class TestKombine(unittest.TestCase):
- def setUp(self):
- self.likelihood = MagicMock()
- self.priors = bilby.core.prior.PriorDict(
- dict(a=bilby.core.prior.Uniform(0, 1), b=bilby.core.prior.Uniform(0, 1))
- )
- self.sampler = bilby.core.sampler.Kombine(
- self.likelihood,
- self.priors,
- outdir="outdir",
- label="label",
- use_ratio=False,
- plot=False,
- skip_import_verification=True,
- )
-
- def tearDown(self):
- del self.likelihood
- del self.priors
- del self.sampler
-
- def test_default_kwargs(self):
- expected = dict(
- nwalkers=500,
- args=[],
- pool=None,
- transd=False,
- lnpost0=None,
- blob0=None,
- iterations=500,
- storechain=True,
- processes=1,
- update_interval=None,
- kde=None,
- kde_size=None,
- spaces=None,
- freeze_transd=False,
- test_steps=16,
- critical_pval=0.05,
- max_steps=None,
- burnin_verbose=False,
- )
- self.assertDictEqual(expected, self.sampler.kwargs)
-
- def test_translate_kwargs(self):
- expected = dict(
- nwalkers=400,
- args=[],
- pool=None,
- transd=False,
- lnpost0=None,
- blob0=None,
- iterations=500,
- storechain=True,
- processes=1,
- update_interval=None,
- kde=None,
- kde_size=None,
- spaces=None,
- freeze_transd=False,
- test_steps=16,
- critical_pval=0.05,
- max_steps=None,
- burnin_verbose=False,
- )
- for equiv in bilby.core.sampler.base_sampler.MCMCSampler.nwalkers_equiv_kwargs:
- new_kwargs = self.sampler.kwargs.copy()
- del new_kwargs["nwalkers"]
- new_kwargs[equiv] = 400
- self.sampler.kwargs = new_kwargs
- self.assertDictEqual(expected, self.sampler.kwargs)
-
-
-class TestNestle(unittest.TestCase):
- def setUp(self):
- self.likelihood = MagicMock()
- self.priors = bilby.core.prior.PriorDict(
- dict(a=bilby.core.prior.Uniform(0, 1), b=bilby.core.prior.Uniform(0, 1))
- )
- self.sampler = bilby.core.sampler.Nestle(
- self.likelihood,
- self.priors,
- outdir="outdir",
- label="label",
- use_ratio=False,
- plot=False,
- skip_import_verification=True,
- verbose=False,
- )
-
- def tearDown(self):
- del self.likelihood
- del self.priors
- del self.sampler
-
- def test_default_kwargs(self):
- expected = dict(
- verbose=False,
- method="multi",
- npoints=500,
- update_interval=None,
- npdim=None,
- maxiter=None,
- maxcall=None,
- dlogz=None,
- decline_factor=None,
- rstate=None,
- callback=None,
- steps=20,
- enlarge=1.2,
- )
- self.assertDictEqual(expected, self.sampler.kwargs)
-
- def test_translate_kwargs(self):
- expected = dict(
- verbose=False,
- method="multi",
- npoints=345,
- update_interval=None,
- npdim=None,
- maxiter=None,
- maxcall=None,
- dlogz=None,
- decline_factor=None,
- rstate=None,
- callback=None,
- steps=20,
- enlarge=1.2,
- )
- self.sampler.kwargs["npoints"] = 123
- for equiv in bilby.core.sampler.base_sampler.NestedSampler.npoints_equiv_kwargs:
- new_kwargs = self.sampler.kwargs.copy()
- del new_kwargs["npoints"]
- new_kwargs[equiv] = 345
- self.sampler.kwargs = new_kwargs
- self.assertDictEqual(expected, self.sampler.kwargs)
-
-
-class TestPolyChord(unittest.TestCase):
- def setUp(self):
- self.likelihood = MagicMock()
- self.priors = bilby.core.prior.PriorDict(
- dict(a=bilby.core.prior.Uniform(0, 1), b=bilby.core.prior.Uniform(0, 1))
- )
- self.sampler = bilby.core.sampler.PyPolyChord(
- self.likelihood,
- self.priors,
- outdir="outdir",
- label="polychord",
- use_ratio=False,
- plot=False,
- skip_import_verification=True,
- )
-
- def tearDown(self):
- del self.likelihood
- del self.priors
- del self.sampler
-
- def test_default_kwargs(self):
- expected = dict(
- use_polychord_defaults=False,
- nlive=self.sampler.ndim * 25,
- num_repeats=self.sampler.ndim * 5,
- nprior=-1,
- do_clustering=True,
- feedback=1,
- precision_criterion=0.001,
- logzero=-1e30,
- max_ndead=-1,
- boost_posterior=0.0,
- posteriors=True,
- equals=True,
- cluster_posteriors=True,
- write_resume=True,
- write_paramnames=False,
- read_resume=True,
- write_stats=True,
- write_live=True,
- write_dead=True,
- write_prior=True,
- compression_factor=np.exp(-1),
- base_dir="outdir",
- file_root="polychord",
- seed=-1,
- grade_dims=list([self.sampler.ndim]),
- grade_frac=list([1.0] * len([self.sampler.ndim])),
- nlives={},
- )
- self.sampler._setup_dynamic_defaults()
- self.assertDictEqual(expected, self.sampler.kwargs)
-
- def test_translate_kwargs(self):
- expected = dict(
- use_polychord_defaults=False,
- nlive=123,
- num_repeats=self.sampler.ndim * 5,
- nprior=-1,
- do_clustering=True,
- feedback=1,
- precision_criterion=0.001,
- logzero=-1e30,
- max_ndead=-1,
- boost_posterior=0.0,
- posteriors=True,
- equals=True,
- cluster_posteriors=True,
- write_resume=True,
- write_paramnames=False,
- read_resume=True,
- write_stats=True,
- write_live=True,
- write_dead=True,
- write_prior=True,
- compression_factor=np.exp(-1),
- base_dir="outdir",
- file_root="polychord",
- seed=-1,
- grade_dims=list([self.sampler.ndim]),
- grade_frac=list([1.0] * len([self.sampler.ndim])),
- nlives={},
- )
- self.sampler._setup_dynamic_defaults()
- for equiv in bilby.core.sampler.base_sampler.NestedSampler.npoints_equiv_kwargs:
- new_kwargs = self.sampler.kwargs.copy()
- del new_kwargs["nlive"]
- new_kwargs[equiv] = 123
- self.sampler.kwargs = new_kwargs
- self.assertDictEqual(expected, self.sampler.kwargs)
-
-
-class TestPTEmcee(unittest.TestCase):
- def setUp(self):
- self.likelihood = MagicMock()
- self.priors = bilby.core.prior.PriorDict(
- dict(a=bilby.core.prior.Uniform(0, 1), b=bilby.core.prior.Uniform(0, 1))
- )
- self.sampler = bilby.core.sampler.Ptemcee(
- self.likelihood,
- self.priors,
- outdir="outdir",
- label="label",
- use_ratio=False,
- plot=False,
- skip_import_verification=True,
- )
-
- def tearDown(self):
- del self.likelihood
- del self.priors
- del self.sampler
-
- def test_default_kwargs(self):
- expected = dict(
- ntemps=20,
- nwalkers=200,
- Tmax=None,
- betas=None,
- a=2.0,
- adaptation_lag=10000,
- adaptation_time=100,
- random=None,
- adapt=True,
- swap_ratios=False,
- )
- self.assertDictEqual(expected, self.sampler.kwargs)
-
- def test_translate_kwargs(self):
- expected = dict(
- ntemps=20,
- nwalkers=200,
- Tmax=None,
- betas=None,
- a=2.0,
- adaptation_lag=10000,
- adaptation_time=100,
- random=None,
- adapt=True,
- swap_ratios=False,
- )
- for equiv in bilby.core.sampler.base_sampler.MCMCSampler.nwalkers_equiv_kwargs:
- new_kwargs = self.sampler.kwargs.copy()
- del new_kwargs["nwalkers"]
- new_kwargs[equiv] = 200
- self.sampler.kwargs = new_kwargs
- self.assertDictEqual(expected, self.sampler.kwargs)
-
-
-class TestPyMC3(unittest.TestCase):
- def setUp(self):
- self.likelihood = MagicMock()
- self.priors = bilby.core.prior.PriorDict(
- dict(a=bilby.core.prior.Uniform(0, 1), b=bilby.core.prior.Uniform(0, 1))
- )
- self.sampler = bilby.core.sampler.Pymc3(
- self.likelihood,
- self.priors,
- outdir="outdir",
- label="label",
- use_ratio=False,
- plot=False,
- skip_import_verification=True,
- )
-
- def tearDown(self):
- del self.likelihood
- del self.priors
- del self.sampler
-
- def test_default_kwargs(self):
- expected = dict(
- draws=500,
- step=None,
- init="auto",
- n_init=200000,
- start=None,
- trace=None,
- chain_idx=0,
- chains=2,
- cores=1,
- tune=500,
- progressbar=True,
- model=None,
- nuts_kwargs=None,
- step_kwargs=None,
- random_seed=None,
- discard_tuned_samples=True,
- compute_convergence_checks=True,
- )
- expected.update(self.sampler.default_nuts_kwargs)
- expected.update(self.sampler.default_step_kwargs)
- self.assertDictEqual(expected, self.sampler.kwargs)
-
- def test_translate_kwargs(self):
- expected = dict(
- draws=500,
- step=None,
- init="auto",
- n_init=200000,
- start=None,
- trace=None,
- chain_idx=0,
- chains=2,
- cores=1,
- tune=500,
- progressbar=True,
- model=None,
- nuts_kwargs=None,
- step_kwargs=None,
- random_seed=None,
- discard_tuned_samples=True,
- compute_convergence_checks=True,
- )
- expected.update(self.sampler.default_nuts_kwargs)
- expected.update(self.sampler.default_step_kwargs)
- self.sampler.kwargs["draws"] = 123
- for equiv in bilby.core.sampler.base_sampler.NestedSampler.npoints_equiv_kwargs:
- new_kwargs = self.sampler.kwargs.copy()
- del new_kwargs["draws"]
- new_kwargs[equiv] = 500
- self.sampler.kwargs = new_kwargs
- self.assertDictEqual(expected, self.sampler.kwargs)
-
-
-class TestPymultinest(unittest.TestCase):
- def setUp(self):
- self.likelihood = MagicMock()
- self.priors = bilby.core.prior.PriorDict(
- dict(a=bilby.core.prior.Uniform(0, 1), b=bilby.core.prior.Uniform(0, 1))
- )
- self.priors["a"] = bilby.core.prior.Prior(boundary="periodic")
- self.priors["b"] = bilby.core.prior.Prior(boundary="reflective")
- self.sampler = bilby.core.sampler.Pymultinest(
- self.likelihood,
- self.priors,
- outdir="outdir",
- label="label",
- use_ratio=False,
- plot=False,
- skip_import_verification=True,
- )
-
- def tearDown(self):
- del self.likelihood
- del self.priors
- del self.sampler
-
- def test_default_kwargs(self):
- expected = dict(importance_nested_sampling=False, resume=True,
- verbose=True, sampling_efficiency='parameter',
- n_live_points=500, n_params=2,
- n_clustering_params=None, wrapped_params=None,
- multimodal=True, const_efficiency_mode=False,
- evidence_tolerance=0.5,
- n_iter_before_update=100, null_log_evidence=-1e90,
- max_modes=100, mode_tolerance=-1e90, seed=-1,
- context=0, write_output=True, log_zero=-1e100,
- max_iter=0, init_MPI=False, dump_callback='dumper')
- self.sampler.kwargs['dump_callback'] = 'dumper' # Check like the dynesty print_func
- self.assertListEqual([1, 0], self.sampler.kwargs['wrapped_params']) # Check this separately
- self.sampler.kwargs['wrapped_params'] = None # The dict comparison can't handle lists
- self.assertDictEqual(expected, self.sampler.kwargs)
-
- def test_translate_kwargs(self):
- expected = dict(importance_nested_sampling=False, resume=True,
- verbose=True, sampling_efficiency='parameter',
- n_live_points=123, n_params=2,
- n_clustering_params=None, wrapped_params=None,
- multimodal=True, const_efficiency_mode=False,
- evidence_tolerance=0.5,
- n_iter_before_update=100, null_log_evidence=-1e90,
- max_modes=100, mode_tolerance=-1e90, seed=-1,
- context=0, write_output=True, log_zero=-1e100,
- max_iter=0, init_MPI=False, dump_callback='dumper')
-
- for equiv in bilby.core.sampler.base_sampler.NestedSampler.npoints_equiv_kwargs:
- new_kwargs = self.sampler.kwargs.copy()
- del new_kwargs["n_live_points"]
- new_kwargs[
- "wrapped_params"
- ] = None # The dict comparison can't handle lists
- new_kwargs['dump_callback'] = 'dumper' # Check this like Dynesty print_func
- new_kwargs[equiv] = 123
- self.sampler.kwargs = new_kwargs
- self.assertDictEqual(expected, self.sampler.kwargs)
-
-
-class TestUltranest(unittest.TestCase):
-
- def setUp(self):
- self.maxDiff = None
- self.likelihood = MagicMock()
- self.priors = bilby.core.prior.PriorDict(
- dict(a=bilby.core.prior.Uniform(0, 1),
- b=bilby.core.prior.Uniform(0, 1)))
- self.priors["a"] = bilby.core.prior.Prior(boundary="periodic")
- self.priors["b"] = bilby.core.prior.Prior(boundary="reflective")
- self.sampler = bilby.core.sampler.Ultranest(self.likelihood, self.priors,
- outdir="outdir", label="label",
- use_ratio=False, plot=False,
- skip_import_verification=True)
-
- def tearDown(self):
- del self.likelihood
- del self.priors
- del self.sampler
- shutil.rmtree("outdir")
-
- def test_default_kwargs(self):
- expected = dict(
- resume=True,
- show_status=True,
- num_live_points=None,
- wrapped_params=None,
- derived_param_names=None,
- run_num=None,
- vectorized=False,
- num_test_samples=2,
- draw_multiple=True,
- num_bootstraps=30,
- update_interval_iter=None,
- update_interval_ncall=None,
- log_interval=None,
- dlogz=None,
- max_iters=None,
- update_interval_iter_fraction=0.2,
- viz_callback=None,
- dKL=0.5,
- frac_remain=0.01,
- Lepsilon=0.001,
- min_ess=400,
- max_ncalls=None,
- max_num_improvement_loops=-1,
- min_num_live_points=400,
- cluster_num_live_points=40,
- step_sampler=None,
- )
- self.assertListEqual([1, 0], self.sampler.kwargs["wrapped_params"]) # Check this separately
- self.sampler.kwargs["wrapped_params"] = None # The dict comparison can't handle lists
- self.sampler.kwargs["derived_param_names"] = None
- self.sampler.kwargs["viz_callback"] = None
- self.assertDictEqual(expected, self.sampler.kwargs)
-
- def test_translate_kwargs(self):
- expected = dict(
- resume=True,
- show_status=True,
- num_live_points=123,
- wrapped_params=None,
- derived_param_names=None,
- run_num=None,
- vectorized=False,
- num_test_samples=2,
- draw_multiple=True,
- num_bootstraps=30,
- update_interval_iter=None,
- update_interval_ncall=None,
- log_interval=None,
- dlogz=None,
- max_iters=None,
- update_interval_iter_fraction=0.2,
- viz_callback=None,
- dKL=0.5,
- frac_remain=0.01,
- Lepsilon=0.001,
- min_ess=400,
- max_ncalls=None,
- max_num_improvement_loops=-1,
- min_num_live_points=400,
- cluster_num_live_points=40,
- step_sampler=None,
- )
- for equiv in bilby.core.sampler.base_sampler.NestedSampler.npoints_equiv_kwargs:
- new_kwargs = self.sampler.kwargs.copy()
- del new_kwargs['num_live_points']
- new_kwargs[equiv] = 123
- self.sampler.kwargs = new_kwargs
- self.sampler.kwargs["wrapped_params"] = None
- self.sampler.kwargs["derived_param_names"] = None
- self.sampler.kwargs["viz_callback"] = None
- self.assertDictEqual(expected, self.sampler.kwargs)
-
-
-class TestRunningSamplers(unittest.TestCase):
- def setUp(self):
- np.random.seed(42)
- bilby.core.utils.command_line_args.bilby_test_mode = False
- self.x = np.linspace(0, 1, 11)
- self.model = lambda x, m, c: m * x + c
- self.injection_parameters = dict(m=0.5, c=0.2)
- self.sigma = 0.1
- self.y = self.model(self.x, **self.injection_parameters) + np.random.normal(
- 0, self.sigma, len(self.x)
- )
- self.likelihood = bilby.likelihood.GaussianLikelihood(
- self.x, self.y, self.model, self.sigma
- )
-
- self.priors = bilby.core.prior.PriorDict()
- self.priors["m"] = bilby.core.prior.Uniform(0, 5, boundary="reflective")
- self.priors["c"] = bilby.core.prior.Uniform(-2, 2, boundary="reflective")
- bilby.core.utils.check_directory_exists_and_if_not_mkdir("outdir")
-
- def tearDown(self):
- del self.likelihood
- del self.priors
- bilby.core.utils.command_line_args.bilby_test_mode = False
- shutil.rmtree("outdir")
-
- def test_run_cpnest(self):
- _ = bilby.run_sampler(
- likelihood=self.likelihood,
- priors=self.priors,
- sampler="cpnest",
- nlive=100,
- save=False,
- resume=False,
- )
-
- def test_run_dynesty(self):
- _ = bilby.run_sampler(
- likelihood=self.likelihood,
- priors=self.priors,
- sampler="dynesty",
- nlive=100,
- save=False,
- )
-
- def test_run_dynamic_dynesty(self):
- _ = bilby.run_sampler(
- likelihood=self.likelihood,
- priors=self.priors,
- sampler="dynamic_dynesty",
- nlive_init=100,
- nlive_batch=100,
- dlogz_init=1.0,
- maxbatch=0,
- maxcall=100,
- bound="single",
- save=False,
- )
-
- def test_run_emcee(self):
- _ = bilby.run_sampler(
- likelihood=self.likelihood,
- priors=self.priors,
- sampler="emcee",
- iterations=1000,
- nwalkers=10,
- save=False,
- )
-
- def test_run_kombine(self):
- _ = bilby.run_sampler(
- likelihood=self.likelihood,
- priors=self.priors,
- sampler="kombine",
- iterations=1000,
- nwalkers=100,
- save=False,
- autoburnin=True,
- )
-
- def test_run_nestle(self):
- _ = bilby.run_sampler(
- likelihood=self.likelihood,
- priors=self.priors,
- sampler="nestle",
- nlive=100,
- save=False,
- )
-
- def test_run_pypolychord(self):
- _ = bilby.run_sampler(
- likelihood=self.likelihood,
- priors=self.priors,
- sampler="pypolychord",
- nlive=100,
- save=False,
- )
-
- def test_run_ptemcee(self):
- _ = bilby.run_sampler(
- likelihood=self.likelihood,
- priors=self.priors,
- sampler="ptemcee",
- nsamples=100,
- nwalkers=50,
- burn_in_act=1,
- ntemps=1,
- frac_threshold=0.5,
- save=False,
- )
-
- def test_run_pymc3(self):
- _ = bilby.run_sampler(
- likelihood=self.likelihood,
- priors=self.priors,
- sampler="pymc3",
- draws=50,
- tune=50,
- n_init=1000,
- save=False,
- )
-
- def test_run_pymultinest(self):
- _ = bilby.run_sampler(
- likelihood=self.likelihood,
- priors=self.priors,
- sampler="pymultinest",
- nlive=100,
- save=False,
- )
-
- def test_run_PTMCMCSampler(self):
- _ = bilby.run_sampler(
- likelihood=self.likelihood,
- priors=self.priors,
- sampler="PTMCMCsampler",
- Niter=101,
- burn=2,
- isave=100,
- save=False,
- )
-
- def test_run_ultranest(self):
- # run using NestedSampler (with nlive specified)
- _ = bilby.run_sampler(
- likelihood=self.likelihood, priors=self.priors,
- sampler="ultranest", nlive=100, save=False,
- )
-
- # run using ReactiveNestedSampler (with no nlive given)
- _ = bilby.run_sampler(
- likelihood=self.likelihood, priors=self.priors,
- sampler='ultranest', save=False,
- )
-
-
-if __name__ == "__main__":
- unittest.main()
diff --git a/test/standard_data.txt b/test/standard_data.txt
deleted file mode 100644
index 7bc38c983a0d134a392896d7880ee73b6fb1a357..0000000000000000000000000000000000000000
--- a/test/standard_data.txt
+++ /dev/null
@@ -1,8194 +0,0 @@
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diff --git a/test/utils_py3_test.py b/test/utils_py3_test.py
deleted file mode 100644
index fa0717bef6214576f0ec99c8652fda33acc7cc41..0000000000000000000000000000000000000000
--- a/test/utils_py3_test.py
+++ /dev/null
@@ -1,64 +0,0 @@
-from __future__ import absolute_import, division
-
-import unittest
-
-from bilby.core import utils
-
-
-class TestInferParameters(unittest.TestCase):
- def setUp(self):
- def source_function1(freqs, a, b: int):
- return None
-
- def source_function2(freqs, a, b, *args, **kwargs):
- return None
-
- def source_function3(freqs, a, b: int, *args, **kwargs):
- return None
-
- class TestClass:
- def test_method(self, a, b: int, *args, **kwargs):
- pass
-
- class TestClass2:
- def test_method(self, freqs, a, b: int, *args, **kwargs):
- pass
-
- self.source1 = source_function1
- self.source2 = source_function2
- self.source3 = source_function3
- test_obj = TestClass()
- self.source4 = test_obj.test_method
- test_obj2 = TestClass()
- self.source5 = test_obj2.test_method
-
- def tearDown(self):
- del self.source1
- del self.source2
- del self.source3
- del self.source4
-
- def test_type_hinting(self):
- expected = ["a", "b"]
- actual = utils.infer_parameters_from_function(self.source1)
- self.assertListEqual(expected, actual)
-
- def test_args_kwargs_handling(self):
- expected = ["a", "b"]
- actual = utils.infer_parameters_from_function(self.source2)
- self.assertListEqual(expected, actual)
-
- def test_both(self):
- expected = ["a", "b"]
- actual = utils.infer_parameters_from_function(self.source3)
- self.assertListEqual(expected, actual)
-
- def test_self_handling(self):
- expected = ["a", "b"]
- actual = utils.infer_args_from_method(self.source4)
- self.assertListEqual(expected, actual)
-
- def test_self_handling_method_as_function(self):
- expected = ["a", "b"]
- actual = utils.infer_args_from_method(self.source5)
- self.assertListEqual(expected, actual)