def test_CSVMarshall_uses_same_paths_as_paths_module(tmpdir): """ Runs the gamut of paths produced by paths.py and compares to CSVMarshall path computation. """ from covid_model_seiir_pipeline.paths import ( RegressionPaths, ForecastPaths, ) root = pathlib.Path(tmpdir) m = CSVMarshall(root) r = RegressionPaths(root) f = ForecastPaths(root, scenarios=["happy"]) dargs = {'draw_id': 4} sdargs = {'scenario': "happy", 'draw_id': 4} # forecasting/data.py # load_regression_coefficients assert r.get_coefficient_file(**dargs) == m.resolve_key( Keys.coefficient(**dargs)) # load_dates_df assert r.get_date_file(**dargs) == m.resolve_key(Keys.date(**dargs)) # load_beta_regression assert r.get_beta_regression_file(**dargs) == m.resolve_key( Keys.regression_beta(**dargs)) # load_infection_data assert r.get_data_file(**dargs) == m.resolve_key( Keys.location_data(**dargs)) # load_beta_params assert r.get_beta_param_file(**dargs) == m.resolve_key( Keys.parameter(**dargs)) # save_components assert f.get_components_path(**sdargs) == m.resolve_key( Keys.components(**sdargs)) # save_beta_scales assert f.get_beta_scaling_path(**sdargs) == m.resolve_key( Keys.beta_scales(**sdargs)) # save_outputs assert f.get_outputs_path(**sdargs) == m.resolve_key( Keys.forecast_raw_outputs(**sdargs)) # regression/data.py # save_beta_param_file assert r.get_beta_param_file(**dargs) == m.resolve_key( Keys.parameter(**dargs)) # save_date_file assert r.get_date_file(**dargs) == m.resolve_key(Keys.date(**dargs)) # save_regression_coefficients assert r.get_coefficient_file(**dargs) == m.resolve_key( Keys.coefficient(**dargs)) # save_regression_betas assert r.get_beta_regression_file(**dargs) == m.resolve_key( Keys.regression_beta(**dargs)) # save_location_data assert r.get_data_file(**dargs) == m.resolve_key( Keys.location_data(**dargs))
def test_datetime(self, instance, regression_beta): """ Re-use regression_Beta fixture but cast date as a datetime. """ regression_beta['date'] = pandas.to_datetime(regression_beta['date']) key = Keys.regression_beta(4) instance.dump(regression_beta, key=key) loaded = instance.load(key) pandas.testing.assert_frame_equal(regression_beta, loaded)
def save_regression_betas(self, df: pd.DataFrame, draw_id: int) -> None: self.regression_marshall.dump(df, key=MKeys.regression_beta(draw_id))
def load_beta_regression(self, draw_id: int) -> pd.DataFrame: beta_regression = self.regression_marshall.load( key=MKeys.regression_beta(draw_id)) beta_regression['date'] = pd.to_datetime(beta_regression['date']) return beta_regression