def get_morphology_features(self, dataframe=False, file_name=None): """ Download morphology features for all cells with reconstructions in the database. Parameters ---------- file_name: string File name to save/read the ephys features metadata as CSV. If file_name is None, the file_name will be pulled out of the manifest. If caching is disabled, no file will be saved. Default is None. dataframe: boolean Return the output as a Pandas DataFrame. If False, return a list of dictionaries. """ file_name = self.get_cache_path( file_name, self.MORPHOLOGY_FEATURES_KEY) if self.cache: if dataframe: warnings.warn("dataframe argument is deprecated.") args = Cache.cache_csv_dataframe() else: args = Cache.cache_csv_json() else: args = Cache.nocache_json() args['strategy'] = 'lazy' args['path'] = file_name return self.api.get_morphology_features(**args)
def get_morphology_features(self, dataframe=False, file_name=None): """ Download morphology features for all cells with reconstructions in the database. Parameters ---------- file_name: string File name to save/read the ephys features metadata as CSV. If file_name is None, the file_name will be pulled out of the manifest. If caching is disabled, no file will be saved. Default is None. dataframe: boolean Return the output as a Pandas DataFrame. If False, return a list of dictionaries. """ file_name = self.get_cache_path(file_name, self.MORPHOLOGY_FEATURES_KEY) if self.cache: if dataframe: warnings.warn("dataframe argument is deprecated.") args = Cache.cache_csv_dataframe() else: args = Cache.cache_csv_json() else: args = Cache.nocache_json() args['strategy'] = 'lazy' args['path'] = file_name return self.api.get_morphology_features(**args)
def test_cacheable_csv_json(mkdir, dictwriter, ju_read_url_get, ju_read, ju_write, from_csv, mock_read_json): @cacheable() def get_hemispheres(): return RmaApi().model_query(model='Hemisphere') with patch(builtins.__name__ + '.open', mock_open(), create=True) as open_mock: open_mock.return_value.write = MagicMock() df = get_hemispheres(path='/xyz/example.csv', strategy='create', **Cache.cache_csv_json()) assert 'whatever' in df[0] ju_read_url_get.assert_called_once_with( 'http://api.brain-map.org/api/v2/data/query.json?q=model::Hemisphere') from_csv.assert_called_once_with('/xyz/example.csv') dictwriter.return_value.writerow.assert_called() assert not mock_read_json.called, 'pj.read_json should not have been called' assert not ju_write.called, 'ju.write should not have been called' assert not ju_read.called, 'json read should not have been called' mkdir.assert_called_once_with('/xyz') open_mock.assert_called_once_with('/xyz/example.csv', 'w')
def test_cacheable_csv_json(mkdir, dictwriter, ju_read_url_get, ju_read, ju_write, read_csv, mock_read_json): @cacheable() def get_hemispheres(): return RmaApi().model_query(model='Hemisphere') with patch(builtins.__name__ + '.open', mock_open(), create=True) as open_mock: open_mock.return_value.write = MagicMock() df = get_hemispheres(path='/xyz/example.csv', strategy='create', **Cache.cache_csv_json()) assert 'whatever' in df[0] ju_read_url_get.assert_called_once_with( 'http://api.brain-map.org/api/v2/data/query.json?q=model::Hemisphere') read_csv.assert_called_once_with('/xyz/example.csv', parse_dates=True) dictwriter.return_value.writerow.assert_called() assert not mock_read_json.called, 'pj.read_json should not have been called' assert not ju_write.called, 'ju.write should not have been called' assert not ju_read.called, 'json read should not have been called' mkdir.assert_called_once_with('/xyz') open_mock.assert_called_once_with('/xyz/example.csv', 'w')