[0KRunning with gitlab-runner 14.0.1 (c1edb478)
[0;m[0K on runner5@cit CQmfDwxg
[0;msection_start:1625672727:resolve_secrets
[0K[0K[36;1mResolving secrets[0;m
[0;msection_end:1625672727:resolve_secrets
[0Ksection_start:1625672727:prepare_executor
[0K[0K[36;1mPreparing the "docker" executor[0;m
[0;m[0KUsing Docker executor with image quay.io/[MASKED]/v2-dockerfile-test-suite-python37 ...
[0;m[0KPulling docker image quay.io/[MASKED]/v2-dockerfile-test-suite-python37 ...
[0;m[0KUsing docker image sha256:f5c294bd9bbab3a45e700981c9f4b56188b12e73546834392c8069ccb4d3e384 for quay.io/[MASKED]/v2-dockerfile-test-suite-python37 with digest quay.io/[MASKED]/v2-dockerfile-test-suite-python37@sha256:6baac05bb9d2943655a60b49f5670823ede50eaa49d5fc458e4845203a6156a9 ...
[0;msection_end:1625672729:prepare_executor
[0Ksection_start:1625672729:prepare_script
[0K[0K[36;1mPreparing environment[0;m
[0;mRunning on runner-cqmfdwxg-project-1846-concurrent-0 via gitlabrunner5.ldas.cit...
section_end:1625672730:prepare_script
[0Ksection_start:1625672730:get_sources
[0K[0K[36;1mGetting source from Git repository[0;m
[0;m[32;1mFetching changes...[0;m
Reinitialized existing Git repository in /builds/lscsoft/bilby/.git/
[32;1mChecking out b9d35a5c as improve-result-cli...[0;m
Removing bilby/__pycache__/
Removing bilby/bilby_mcmc/__pycache__/
Removing bilby/core/__pycache__/
Removing bilby/core/prior/__pycache__/
Removing bilby/core/sampler/__pycache__/
Removing bilby/core/utils/__pycache__/
Removing bilby/gw/__pycache__/
Removing bilby/gw/detector/__pycache__/
Removing bilby/gw/eos/__pycache__/
Removing bilby/gw/sampler/__pycache__/
Removing bilby/hyper/__pycache__/
Removing cli_bilby/__pycache__/
[32;1mSkipping Git submodules setup[0;m
section_end:1625672731:get_sources
[0Ksection_start:1625672731:step_script
[0K[0K[36;1mExecuting "step_script" stage of the job script[0;m
[0;m[0KUsing docker image sha256:f5c294bd9bbab3a45e700981c9f4b56188b12e73546834392c8069ccb4d3e384 for quay.io/[MASKED]/v2-dockerfile-test-suite-python37 with digest quay.io/[MASKED]/v2-dockerfile-test-suite-python37@sha256:6baac05bb9d2943655a60b49f5670823ede50eaa49d5fc458e4845203a6156a9 ...
[0;m[32;1m$ python -m pip install .[0;m
Processing /builds/lscsoft/bilby
DEPRECATION: A future pip version will change local packages to be built in-place without first copying to a temporary directory. We recommend you use --use-feature=in-tree-build to test your packages with this new behavior before it becomes the default.
pip 21.3 will remove support for this functionality. You can find discussion regarding this at https://github.com/pypa/pip/issues/7555.
Requirement already satisfied: dynesty in /opt/conda/envs/python37/lib/python3.7/site-packages (from bilby==1.1.2) (1.1)
Requirement already satisfied: emcee in /opt/conda/envs/python37/lib/python3.7/site-packages (from bilby==1.1.2) (3.1.0)
Requirement already satisfied: corner in /opt/conda/envs/python37/lib/python3.7/site-packages (from bilby==1.1.2) (2.2.1)
Requirement already satisfied: numpy in /opt/conda/envs/python37/lib/python3.7/site-packages (from bilby==1.1.2) (1.21.0)
Requirement already satisfied: matplotlib>=2.1 in /opt/conda/envs/python37/lib/python3.7/site-packages (from bilby==1.1.2) (3.4.2)
Requirement already satisfied: scipy>=0.16 in /opt/conda/envs/python37/lib/python3.7/site-packages (from bilby==1.1.2) (1.7.0)
Requirement already satisfied: pandas in /opt/conda/envs/python37/lib/python3.7/site-packages (from bilby==1.1.2) (1.3.0)
Requirement already satisfied: mock in /opt/conda/envs/python37/lib/python3.7/site-packages (from bilby==1.1.2) (4.0.3)
Requirement already satisfied: dill in /opt/conda/envs/python37/lib/python3.7/site-packages (from bilby==1.1.2) (0.3.4)
Requirement already satisfied: tqdm in /opt/conda/envs/python37/lib/python3.7/site-packages (from bilby==1.1.2) (4.61.1)
Requirement already satisfied: h5py in /opt/conda/envs/python37/lib/python3.7/site-packages (from bilby==1.1.2) (3.3.0)
Requirement already satisfied: pyparsing>=2.2.1 in /opt/conda/envs/python37/lib/python3.7/site-packages (from matplotlib>=2.1->bilby==1.1.2) (2.4.7)
Requirement already satisfied: cycler>=0.10 in /opt/conda/envs/python37/lib/python3.7/site-packages (from matplotlib>=2.1->bilby==1.1.2) (0.10.0)
Requirement already satisfied: python-dateutil>=2.7 in /opt/conda/envs/python37/lib/python3.7/site-packages (from matplotlib>=2.1->bilby==1.1.2) (2.8.1)
Requirement already satisfied: pillow>=6.2.0 in /opt/conda/envs/python37/lib/python3.7/site-packages (from matplotlib>=2.1->bilby==1.1.2) (8.3.0)
Requirement already satisfied: kiwisolver>=1.0.1 in /opt/conda/envs/python37/lib/python3.7/site-packages (from matplotlib>=2.1->bilby==1.1.2) (1.3.1)
Requirement already satisfied: six in /opt/conda/envs/python37/lib/python3.7/site-packages (from cycler>=0.10->matplotlib>=2.1->bilby==1.1.2) (1.16.0)
Requirement already satisfied: cached-property in /opt/conda/envs/python37/lib/python3.7/site-packages (from h5py->bilby==1.1.2) (1.5.2)
Requirement already satisfied: pytz>=2017.3 in /opt/conda/envs/python37/lib/python3.7/site-packages (from pandas->bilby==1.1.2) (2021.1)
Building wheels for collected packages: bilby
Building wheel for bilby (setup.py): started
Building wheel for bilby (setup.py): finished with status 'done'
Created wheel for bilby: filename=bilby-1.1.2-py3-none-any.whl size=2233114 sha256=2a5a2555d5bd7e9f2607275661551e33e5a79f80c71895d5a1ad2db4670cb7f2
Stored in directory: /tmp/pip-ephem-wheel-cache-r85k70ao/wheels/8f/9c/db/a18fefa8a68a5b666a894c966c8e1bac2f8fd6c203bf44ed43
Successfully built bilby
Installing collected packages: bilby
WARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv
Successfully installed bilby-1.1.2
[32;1m$ flake8 .[0;m
[32;1m$ pytest --cov=bilby --durations 10[0;m
============================= test session starts ==============================
platform linux -- Python 3.7.10, pytest-6.2.4, py-1.10.0, pluggy-0.13.1
rootdir: /builds/lscsoft/bilby, configfile: setup.cfg
plugins: ligo.skymap-0.5.3, cov-2.12.1
collected 909 items
test/bilby_mcmc/test_chain.py ....................... [ 2%]
test/bilby_mcmc/test_proposals.py ......F...... [ 3%]
test/bilby_mcmc/test_sampler.py .. [ 4%]
test/core/grid_test.py ................. [ 6%]
test/core/likelihood_test.py ........................................... [ 10%]
........................................ [ 15%]
test/core/result_test.py ............................................... [ 20%]
........ [ 21%]
test/core/series_test.py .............. [ 22%]
test/core/utils_test.py ..................................... [ 26%]
test/core/prior/analytical_test.py ...... [ 27%]
test/core/prior/base_test.py ....................... [ 30%]
test/core/prior/conditional_test.py ............................... [ 33%]
test/core/prior/dict_test.py ................................. [ 37%]
test/core/prior/prior_test.py ............................... [ 40%]
test/core/prior/slabspike_test.py ........................ [ 43%]
test/core/sampler/base_sampler_test.py .................... [ 45%]
test/core/sampler/cpnest_test.py .. [ 45%]
test/core/sampler/dnest4_test.py .. [ 45%]
test/core/sampler/dynesty_test.py ... [ 46%]
test/core/sampler/emcee_test.py .. [ 46%]
test/core/sampler/kombine_test.py .. [ 46%]
test/core/sampler/nessai_test.py ...... [ 47%]
test/core/sampler/nestle_test.py .. [ 47%]
test/core/sampler/polychord_test.py .. [ 47%]
test/core/sampler/proposal_test.py ..................................... [ 51%]
... [ 52%]
test/core/sampler/ptemcee_test.py .. [ 52%]
test/core/sampler/pymc3_test.py .. [ 52%]
test/core/sampler/pymultinest_test.py .. [ 52%]
test/core/sampler/ultranest_test.py .. [ 52%]
test/gw/conversion_test.py ...................................... [ 57%]
test/gw/cosmology_test.py ........ [ 57%]
test/gw/likelihood_test.py ....................................... [ 62%]
test/gw/prior_test.py ............................................ [ 67%]
test/gw/result_test.py .......................... [ 69%]
test/gw/source_test.py ............. [ 71%]
test/gw/utils_test.py .............. [ 72%]
test/gw/waveform_generator_test.py ..................................... [ 77%]
...... [ 77%]
test/gw/detector/calibration_test.py ..... [ 78%]
test/gw/detector/geometry_test.py ................................. [ 81%]
test/gw/detector/interferometer_test.py .......................ss....... [ 85%]
......... [ 86%]
test/gw/detector/networks_test.py .........................ss.. [ 89%]
test/gw/detector/psd_test.py ............................... [ 92%]
test/gw/detector/strain_data_test.py ................................... [ 96%]
..... [ 97%]
test/gw/eos/eos_test.py ..... [ 97%]
test/gw/sampler/proposal_test.py ...... [ 98%]
test/hyper/hyper_pe_test.py ...... [ 99%]
test/integration/noise_realisation_test.py .. [ 99%]
test/integration/test_waveforms.py ..... [100%]
=================================== FAILURES ===================================
_______________________ TestProposals.test_KDE_proposal ________________________
self = <test_proposals.TestProposals testMethod=test_KDE_proposal>
def test_KDE_proposal(self):
priors = self.create_priors()
prop = proposals.KDEProposal(priors)
self.proposal_check(prop, N=20000)
> self.assertTrue(prop.trained)
E AssertionError: False is not true
test/bilby_mcmc/test_proposals.py:151: AssertionError
----------------------------- Captured stdout call -----------------------------
Testing KDEProposal
Testing KDEProposal: dt~0.022 [ms]
----------------------------- Captured stderr call -----------------------------
15:46 bilby INFO : Gaussian KDE construction at 1000 finished for length 1999 chain, took 0.02s. Current accept-ratio=nan
15:46 bilby INFO : Gaussian KDE construction failed verification and is discarded
15:46 bilby INFO : Gaussian KDE construction at 10000 finished for length 11999 chain, took 0.02s. Current accept-ratio=nan
15:46 bilby INFO : Gaussian KDE construction failed verification and is discarded
=============================== warnings summary ===============================
test/core/prior/base_test.py:103
/builds/lscsoft/bilby/test/core/prior/base_test.py:103: DeprecationWarning: invalid escape sequence \m
self.assertEqual(self.prior.latex_label, "$\mathcal{M}$")
test/core/prior/dict_test.py:69
/builds/lscsoft/bilby/test/core/prior/dict_test.py:69: DeprecationWarning: invalid escape sequence \m
latex_label="$\mathcal{M}$",
test/core/prior/dict_test.py:179
/builds/lscsoft/bilby/test/core/prior/dict_test.py:179: DeprecationWarning: invalid escape sequence \m
latex_label="$\mathcal{M}$",
../../../opt/conda/envs/python37/lib/python3.7/site-packages/tables/__init__.py:24
../../../opt/conda/envs/python37/lib/python3.7/site-packages/tables/__init__.py:24
/opt/conda/envs/python37/lib/python3.7/site-packages/tables/__init__.py:24: DeprecationWarning: `np.typeDict` is a deprecated alias for `np.sctypeDict`.
from .utilsextension import (
test/core/prior/dict_test.py: 1 warning
test/core/prior/prior_test.py: 31 warnings
/opt/conda/envs/python37/lib/python3.7/site-packages/bilby/gw/prior.py:1153: AstropyDeprecationWarning: "verbose" was deprecated in version 1.15.0 and will be removed in a future version.
self.prob = self.hp.read_map(hp_file, verbose=False)
test/core/prior/dict_test.py: 1 warning
test/core/prior/prior_test.py: 31 warnings
/opt/conda/envs/python37/lib/python3.7/site-packages/bilby/gw/prior.py:1149: AstropyDeprecationWarning: "verbose" was deprecated in version 1.15.0 and will be removed in a future version.
hp_file, verbose=False, field=range(4)
test/core/prior/dict_test.py::TestLoadPrior::test_load_prior_with_float
test/gw/prior_test.py::TestPackagedPriors::test_all
/opt/conda/envs/python37/lib/python3.7/encodings/unicode_escape.py:26: DeprecationWarning: invalid escape sequence '\o'
return codecs.unicode_escape_decode(input, self.errors)[0]
test/core/prior/dict_test.py::TestLoadPrior::test_load_prior_with_parentheses
/opt/conda/envs/python37/lib/python3.7/encodings/unicode_escape.py:26: DeprecationWarning: invalid escape sequence '\l'
return codecs.unicode_escape_decode(input, self.errors)[0]
test/core/prior/prior_test.py::TestPriorClasses::test_cdf_zero_below_domain
/opt/conda/envs/python37/lib/python3.7/site-packages/bilby/core/prior/analytical.py:157: RuntimeWarning: invalid value encountered in log
_cdf = (np.log(val / self.minimum) /
test/core/prior/prior_test.py: 5011 warnings
/opt/conda/envs/python37/lib/python3.7/site-packages/bilby/gw/prior.py:1313: DeprecationWarning: setting an array element with a sequence. This was supported in some cases where the elements are arrays with a single element. For example `np.array([1, np.array([2])], dtype=int)`. In the future this will raise the same ValueError as `np.array([1, [2]], dtype=int)`.
sample[samp, :] = [ra_dec[0], ra_dec[1], dist]
test/core/prior/prior_test.py::TestPriorClasses::test_many_sample_rescaling
test/core/prior/prior_test.py::TestPriorClasses::test_sampling_many
/opt/conda/envs/python37/lib/python3.7/site-packages/bilby/gw/prior.py:1252: RuntimeWarning: invalid value encountered in true_divide
cdfs = np.cumsum(pdfs) / np.sum(pdfs)
test/core/prior/prior_test.py::TestPriorClasses::test_probability_above_domain
test/core/prior/prior_test.py::TestPriorClasses::test_probability_below_domain
/opt/conda/envs/python37/lib/python3.7/site-packages/bilby/core/prior/analytical.py:58: RuntimeWarning: invalid value encountered in multiply
return np.nan_to_num(np.multiply(at_peak, np.inf))
test/core/prior/prior_test.py::TestPriorClasses::test_probability_in_domain
/opt/conda/envs/python37/lib/python3.7/site-packages/bilby/core/prior/analytical.py:1100: RuntimeWarning: overflow encountered in exp
2. * np.log(1. + np.exp(-(val - self.mu) / self.scale)) - np.log(self.scale)
test/core/prior/prior_test.py::TestPriorClasses::test_probability_in_domain
/opt/conda/envs/python37/lib/python3.7/site-packages/bilby/gw/prior.py:1424: RuntimeWarning: divide by zero encountered in log
lnprob[i] += np.log(self.distance_pdf(dist) * dist ** 2)
test/core/prior/prior_test.py::TestPriorClasses::test_probability_surrounding_domain
/opt/conda/envs/python37/lib/python3.7/site-packages/numpy/core/function_base.py:151: RuntimeWarning: invalid value encountered in multiply
y *= step
test/core/prior/prior_test.py::TestPriorClasses::test_probability_surrounding_domain
/opt/conda/envs/python37/lib/python3.7/site-packages/numpy/core/function_base.py:161: RuntimeWarning: invalid value encountered in add
y += start
test/core/prior/slabspike_test.py: 80 warnings
<string>:6: DeprecationWarning: Calling nonzero on 0d arrays is deprecated, as it behaves surprisingly. Use `atleast_1d(cond).nonzero()` if the old behavior was intended. If the context of this warning is of the form `arr[nonzero(cond)]`, just use `arr[cond]`.
test/core/sampler/pymc3_test.py::TestPyMC3::test_default_kwargs
/opt/conda/envs/python37/lib/python3.7/site-packages/theano/scalar/basic.py:2412: DeprecationWarning: `np.bool` is a deprecated alias for the builtin `bool`. To silence this warning, use `bool` by itself. Doing this will not modify any behavior and is safe. If you specifically wanted the numpy scalar type, use `np.bool_` here.
Deprecated in NumPy 1.20; for more details and guidance: https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations
self.ctor = getattr(np, o_type.dtype)
test/core/sampler/pymc3_test.py::TestPyMC3::test_default_kwargs
/opt/conda/envs/python37/lib/python3.7/site-packages/pymc3/__init__.py:34: DeprecationWarning: Function 'semver.match' is deprecated. Deprecated since version 2.10.0. This function will be removed in semver 3. Use the respective 'semver.VersionInfo.match' instead.
if not semver.match(theano.__version__, ">=1.1.2"):
test/core/sampler/pymc3_test.py::TestPyMC3::test_default_kwargs
/opt/conda/envs/python37/lib/python3.7/site-packages/theano/tensor/basic.py:369: DeprecationWarning: `np.complex` is a deprecated alias for the builtin `complex`. To silence this warning, use `complex` by itself. Doing this will not modify any behavior and is safe. If you specifically wanted the numpy scalar type, use `np.complex128` here.
Deprecated in NumPy 1.20; for more details and guidance: https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations
np.complex(data) # works for all numeric scalars
test/core/sampler/pymc3_test.py::TestPyMC3::test_default_kwargs
/opt/conda/envs/python37/lib/python3.7/site-packages/pymc3/step_methods/hmc/hmc.py:42: DeprecationWarning: `np.bool` is a deprecated alias for the builtin `bool`. To silence this warning, use `bool` by itself. Doing this will not modify any behavior and is safe. If you specifically wanted the numpy scalar type, use `np.bool_` here.
Deprecated in NumPy 1.20; for more details and guidance: https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations
"tune": np.bool,
test/core/sampler/pymc3_test.py::TestPyMC3::test_default_kwargs
/opt/conda/envs/python37/lib/python3.7/site-packages/pymc3/step_methods/hmc/hmc.py:45: DeprecationWarning: `np.bool` is a deprecated alias for the builtin `bool`. To silence this warning, use `bool` by itself. Doing this will not modify any behavior and is safe. If you specifically wanted the numpy scalar type, use `np.bool_` here.
Deprecated in NumPy 1.20; for more details and guidance: https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations
"diverging": np.bool,
test/core/sampler/pymc3_test.py::TestPyMC3::test_default_kwargs
/opt/conda/envs/python37/lib/python3.7/site-packages/pymc3/step_methods/hmc/hmc.py:49: DeprecationWarning: `np.bool` is a deprecated alias for the builtin `bool`. To silence this warning, use `bool` by itself. Doing this will not modify any behavior and is safe. If you specifically wanted the numpy scalar type, use `np.bool_` here.
Deprecated in NumPy 1.20; for more details and guidance: https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations
"accepted": np.bool,
test/core/sampler/pymc3_test.py::TestPyMC3::test_default_kwargs
/opt/conda/envs/python37/lib/python3.7/site-packages/pymc3/step_methods/hmc/nuts.py:97: DeprecationWarning: `np.bool` is a deprecated alias for the builtin `bool`. To silence this warning, use `bool` by itself. Doing this will not modify any behavior and is safe. If you specifically wanted the numpy scalar type, use `np.bool_` here.
Deprecated in NumPy 1.20; for more details and guidance: https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations
"tune": np.bool,
test/core/sampler/pymc3_test.py::TestPyMC3::test_default_kwargs
/opt/conda/envs/python37/lib/python3.7/site-packages/pymc3/step_methods/hmc/nuts.py:101: DeprecationWarning: `np.bool` is a deprecated alias for the builtin `bool`. To silence this warning, use `bool` by itself. Doing this will not modify any behavior and is safe. If you specifically wanted the numpy scalar type, use `np.bool_` here.
Deprecated in NumPy 1.20; for more details and guidance: https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations
"diverging": np.bool,
test/core/sampler/pymc3_test.py::TestPyMC3::test_default_kwargs
/opt/conda/envs/python37/lib/python3.7/site-packages/pymc3/step_methods/metropolis.py:107: DeprecationWarning: `np.bool` is a deprecated alias for the builtin `bool`. To silence this warning, use `bool` by itself. Doing this will not modify any behavior and is safe. If you specifically wanted the numpy scalar type, use `np.bool_` here.
Deprecated in NumPy 1.20; for more details and guidance: https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations
"accepted": np.bool,
test/core/sampler/pymc3_test.py::TestPyMC3::test_default_kwargs
/opt/conda/envs/python37/lib/python3.7/site-packages/pymc3/step_methods/metropolis.py:108: DeprecationWarning: `np.bool` is a deprecated alias for the builtin `bool`. To silence this warning, use `bool` by itself. Doing this will not modify any behavior and is safe. If you specifically wanted the numpy scalar type, use `np.bool_` here.
Deprecated in NumPy 1.20; for more details and guidance: https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations
"tune": np.bool,
test/core/sampler/pymc3_test.py::TestPyMC3::test_default_kwargs
/opt/conda/envs/python37/lib/python3.7/site-packages/pymc3/step_methods/metropolis.py:298: DeprecationWarning: `np.bool` is a deprecated alias for the builtin `bool`. To silence this warning, use `bool` by itself. Doing this will not modify any behavior and is safe. If you specifically wanted the numpy scalar type, use `np.bool_` here.
Deprecated in NumPy 1.20; for more details and guidance: https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations
"tune": np.bool,
test/core/sampler/pymc3_test.py::TestPyMC3::test_default_kwargs
/opt/conda/envs/python37/lib/python3.7/site-packages/pymc3/step_methods/metropolis.py:592: DeprecationWarning: `np.bool` is a deprecated alias for the builtin `bool`. To silence this warning, use `bool` by itself. Doing this will not modify any behavior and is safe. If you specifically wanted the numpy scalar type, use `np.bool_` here.
Deprecated in NumPy 1.20; for more details and guidance: https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations
"accepted": np.bool,
test/core/sampler/pymc3_test.py::TestPyMC3::test_default_kwargs
/opt/conda/envs/python37/lib/python3.7/site-packages/pymc3/step_methods/metropolis.py:593: DeprecationWarning: `np.bool` is a deprecated alias for the builtin `bool`. To silence this warning, use `bool` by itself. Doing this will not modify any behavior and is safe. If you specifically wanted the numpy scalar type, use `np.bool_` here.
Deprecated in NumPy 1.20; for more details and guidance: https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations
"tune": np.bool,
test/core/sampler/pymc3_test.py::TestPyMC3::test_default_kwargs
/opt/conda/envs/python37/lib/python3.7/site-packages/pymc3/step_methods/metropolis.py:733: DeprecationWarning: `np.bool` is a deprecated alias for the builtin `bool`. To silence this warning, use `bool` by itself. Doing this will not modify any behavior and is safe. If you specifically wanted the numpy scalar type, use `np.bool_` here.
Deprecated in NumPy 1.20; for more details and guidance: https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations
"accepted": np.bool,
test/core/sampler/pymc3_test.py::TestPyMC3::test_default_kwargs
/opt/conda/envs/python37/lib/python3.7/site-packages/pymc3/step_methods/metropolis.py:734: DeprecationWarning: `np.bool` is a deprecated alias for the builtin `bool`. To silence this warning, use `bool` by itself. Doing this will not modify any behavior and is safe. If you specifically wanted the numpy scalar type, use `np.bool_` here.
Deprecated in NumPy 1.20; for more details and guidance: https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations
"tune": np.bool,
test/gw/source_test.py::TestLalBBH::test_waveform_error_catching
test/gw/source_test.py::TestLalBBH::test_waveform_error_raising
/opt/conda/envs/python37/lib/python3.7/site-packages/numpy/lib/function_base.py:2246: RuntimeWarning: divide by zero encountered in transform_precessing_spins (vectorized)
outputs = ufunc(*inputs)
test/gw/source_test.py::TestLalBBH::test_waveform_error_catching
test/gw/source_test.py::TestLalBBH::test_waveform_error_raising
/opt/conda/envs/python37/lib/python3.7/site-packages/numpy/lib/function_base.py:2246: RuntimeWarning: invalid value encountered in transform_precessing_spins (vectorized)
outputs = ufunc(*inputs)
test/gw/utils_test.py::TestGWUtils::test_read_frame_file
/opt/conda/envs/python37/lib/python3.7/site-packages/gwpy/types/series.py:132: UserWarning: xindex was given to TimeSeries(), x0 will be ignored
% cls.__name__)
test/gw/waveform_generator_test.py: 16 warnings
/opt/conda/envs/python37/lib/python3.7/unittest/case.py:858: DeprecationWarning: elementwise comparison failed; this will raise an error in the future.
if not first != second:
test/gw/detector/interferometer_test.py::TestInterferometer::test_get_detector_response_default_behaviour
test/gw/detector/interferometer_test.py::TestInterferometer::test_get_detector_response_multiple_modes
test/gw/detector/interferometer_test.py::TestInterferometer::test_get_detector_response_with_dt
/opt/conda/envs/python37/lib/python3.7/site-packages/bilby/gw/detector/interferometer.py:313: ComplexWarning: Casting complex values to real discards the imaginary part
-1j * 2 * np.pi * dt * self.strain_data.frequency_array[self.strain_data.frequency_mask])
test/integration/noise_realisation_test.py::TestNoiseRealisation::test_averaged_noise
/builds/lscsoft/bilby/test/integration/noise_realisation_test.py:26: RuntimeWarning: invalid value encountered in multiply
* interferometer.frequency_mask
test/integration/noise_realisation_test.py::TestNoiseRealisation::test_noise_normalisation
/builds/lscsoft/bilby/test/integration/noise_realisation_test.py:50: ComplexWarning: Casting complex values to real discards the imaginary part
snr[x] = interferometer.matched_filter_snr(signal=muf)
-- Docs: https://docs.pytest.org/en/stable/warnings.html
---------- coverage: platform linux, python 3.7.10-final-0 -----------
Name Stmts Miss Cover
-----------------------------------------------------------
bilby/__init__.py 8 8 0%
bilby/bilby_mcmc/__init__.py 1 1 0%
bilby/bilby_mcmc/chain.py 272 272 0%
bilby/bilby_mcmc/flows.py 34 34 0%
bilby/bilby_mcmc/proposals.py 570 570 0%
bilby/bilby_mcmc/sampler.py 702 702 0%
bilby/bilby_mcmc/utils.py 7 7 0%
bilby/core/__init__.py 1 1 0%
bilby/core/grid.py 177 177 0%
bilby/core/likelihood.py 226 226 0%
bilby/core/prior/__init__.py 7 7 0%
bilby/core/prior/analytical.py 429 429 0%
bilby/core/prior/base.py 193 193 0%
bilby/core/prior/conditional.py 124 124 0%
bilby/core/prior/dict.py 423 423 0%
bilby/core/prior/interpolated.py 80 80 0%
bilby/core/prior/joint.py 374 374 0%
bilby/core/prior/slabspike.py 59 59 0%
bilby/core/result.py 911 911 0%
bilby/core/sampler/__init__.py 105 105 0%
bilby/core/sampler/base_sampler.py 270 270 0%
bilby/core/sampler/cpnest.py 131 131 0%
bilby/core/sampler/dnest4.py 172 172 0%
bilby/core/sampler/dynamic_dynesty.py 72 72 0%
bilby/core/sampler/dynesty.py 493 493 0%
bilby/core/sampler/emcee.py 212 212 0%
bilby/core/sampler/fake_sampler.py 30 30 0%
bilby/core/sampler/kombine.py 90 90 0%
bilby/core/sampler/nessai.py 87 87 0%
bilby/core/sampler/nestle.py 45 45 0%
bilby/core/sampler/polychord.py 48 48 0%
bilby/core/sampler/proposal.py 172 172 0%
bilby/core/sampler/ptemcee.py 492 492 0%
bilby/core/sampler/ptmcmc.py 85 85 0%
bilby/core/sampler/pymc3.py 437 437 0%
bilby/core/sampler/pymultinest.py 119 119 0%
bilby/core/sampler/ultranest.py 156 156 0%
bilby/core/series.py 52 52 0%
bilby/core/utils/__init__.py 16 16 0%
bilby/core/utils/calculus.py 109 109 0%
bilby/core/utils/cmd.py 38 38 0%
bilby/core/utils/colors.py 5 5 0%
bilby/core/utils/constants.py 5 5 0%
bilby/core/utils/conversion.py 22 22 0%
bilby/core/utils/counter.py 10 10 0%
bilby/core/utils/docs.py 7 7 0%
bilby/core/utils/introspection.py 37 37 0%
bilby/core/utils/io.py 215 215 0%
bilby/core/utils/logger.py 47 47 0%
bilby/core/utils/plotting.py 42 42 0%
bilby/core/utils/progress.py 15 15 0%
bilby/core/utils/samples.py 50 50 0%
bilby/core/utils/series.py 61 61 0%
bilby/gw/__init__.py 4 4 0%
bilby/gw/conversion.py 412 412 0%
bilby/gw/cosmology.py 34 34 0%
bilby/gw/detector/__init__.py 103 103 0%
bilby/gw/detector/calibration.py 62 62 0%
bilby/gw/detector/geometry.py 105 105 0%
bilby/gw/detector/interferometer.py 228 228 0%
bilby/gw/detector/networks.py 169 169 0%
bilby/gw/detector/psd.py 134 134 0%
bilby/gw/detector/strain_data.py 286 286 0%
bilby/gw/eos/__init__.py 2 2 0%
bilby/gw/eos/eos.py 354 354 0%
bilby/gw/eos/tov_solver.py 50 50 0%
bilby/gw/likelihood.py 747 747 0%
bilby/gw/prior.py 642 642 0%
bilby/gw/result.py 346 346 0%
bilby/gw/sampler/__init__.py 1 1 0%
bilby/gw/sampler/proposal.py 26 26 0%
bilby/gw/source.py 154 154 0%
bilby/gw/utils.py 313 313 0%
bilby/gw/waveform_generator.py 86 86 0%
bilby/hyper/__init__.py 1 1 0%
bilby/hyper/likelihood.py 57 57 0%
bilby/hyper/model.py 26 26 0%
-----------------------------------------------------------
TOTAL 12887 12887 0%
============================= slowest 10 durations =============================
16.77s call test/integration/noise_realisation_test.py::TestNoiseRealisation::test_noise_normalisation
16.49s call test/bilby_mcmc/test_sampler.py::TestBilbyMCMCSampler::test_default_proposal_cycle
10.44s call test/core/prior/prior_test.py::TestPriorClasses::test_sampling_many
4.58s call test/core/prior/dict_test.py::TestJsonIO::test_read_write_to_json
4.07s call test/core/prior/prior_test.py::TestPriorClasses::test_repr
3.96s call test/gw/prior_test.py::TestPriorConversion::test_bilby_to_lalinference
3.69s call test/core/result_test.py::TestResult::test_plot_corner
3.40s call test/bilby_mcmc/test_chain.py::TestChain::test_plot
2.80s call test/core/prior/prior_test.py::TestPriorClasses::test_probability_in_domain
2.67s call test/core/prior/prior_test.py::TestPriorClasses::test_eq_different_classes
=========================== short test summary info ============================
FAILED test/bilby_mcmc/test_proposals.py::TestProposals::test_KDE_proposal - ...
===== 1 failed, 904 passed, 4 skipped, 5213 warnings in 199.12s (0:03:19) ======
Coverage.py warning: No data was collected. (no-data-collected)
section_end:1625672938:step_script
[0Ksection_start:1625672938:cleanup_file_variables
[0K[0K[36;1mCleaning up file based variables[0;m
[0;msection_end:1625672938:cleanup_file_variables
[0K[31;1mERROR: Job failed: exit code 1
[0;m