def test_read(self, mock_read_json, mock_open):
# pylint: disable=protected-access
task = CleanIntensiveCareDataset(None, Store())
task._read("test.csv")
mock_read_json.assert_called_once_with(mock.ANY)
mock_open.assert_called_once_with("test.csv", "r")
def test_run(self, mock_write, mock_get):
response = self.intensive_care_response
mock_get.side_effect = response
task = GetIntensiveCareDataset(self.config["collector"], Client(),
Store())
task(output_folder="raw")
mock_get.assert_has_calls([
mock.call(self.config["collector"]["urls"]["intensive_care"][0]),
mock.call(self.config["collector"]["urls"]["intensive_care"][1]),
mock.call(self.config["collector"]["urls"]["intensive_care"][2]),
])
mock_write.assert_has_calls([
mock.call(json.loads(response[0]), "raw/1970-01-01-ic-count.json"),
mock.call(
json.loads(response[1])[0],
"raw/1970-01-01-new-intake-confirmed.json",
),
mock.call(
json.loads(response[1])[1],
"raw/1970-01-01-new-intake-suspicious.json",
),
mock.call(
json.loads(response[2])[0],
"raw/1970-01-01-died-cumulative.json",
),
mock.call(
json.loads(response[2])[1],
"raw/1970-01-01-survived-cumulative.json",
),
])
def test_write(self, mock_to_csv, mock_open):
# pylint: disable=protected-access
task = CleanIntensiveCareDataset(None, Store())
task._write(pd.DataFrame(np.zeros(shape=(3, 3))), "test.csv", index=False)
mock_to_csv.assert_called_once_with(mock.ANY, index=False)
mock_open.assert_called_once_with("test.csv", "w")
def test_read(self, mock_read_csv, mock_open):
# pylint: disable=protected-access
task = MergeIntensiveCareDataset(None, Store())
task._read("test.csv", delimiter=",")
mock_read_csv.assert_called_once_with(mock.ANY, delimiter=",")
mock_open.assert_called_once_with("test.csv", "r")
def test_run_valid_input(self, mock_run):
task = CleanIntensiveCareDataset(self.config["collector"], Store())
task(input_folder="raw", output_folder="processed")
mock_run.assert_called_once_with(
{"input_folder": "raw", "output_folder": "processed"}
)
def test_run(self, mock_write, mock_read, mock_list):
mock_list.return_value = ["raw/1970-01-01.csv"]
mock_read.return_value = pd.DataFrame(
{"PositiefGetest": [1000], "Opgenomen": [2000], "Overleden": [3000]}
)
task = CleanNationalDataset(self.config["collector"], Store())
task(input_folder="raw", output_folder="interim")
mock_list.assert_called_once_with("raw/*.csv")
mock_read.assert_called_once_with("raw/1970-01-01.csv")
mock_write.assert_called_once_with(
mock.ANY, "interim/1970-01-01.csv", index=False
)
pd.testing.assert_frame_equal(
mock_write.call_args.args[0],
pd.DataFrame(
{
"PositiefGetest": [1000],
"Opgenomen": [2000],
"Overleden": [3000],
"Datum": ["1970-01-01"],
}
),
check_dtype=False,
)
def test_run_valid_input(self, mock_run):
task = MergeMunicipalityDataset(self.config["collector"], Store())
task(name="test", input_folder="interim", output_folder="processed")
mock_run.assert_called_once_with(
{"name": "test", "input_folder": "interim", "output_folder": "processed"}
)
def test_run_invalid_input(self, mock_run, inputs, messages):
task = CleanIntensiveCareDataset(self.config["collector"], Store())
with pytest.raises(ValidationError) as error:
task(**inputs)
mock_run.assert_not_called()
for (idx, error) in enumerate(error.value.errors):
assert error.message == messages[idx]
def test_run(self, mock_write, mock_read, mock_list):
mock_list.return_value = [
"interim/1970-01-02-file-1.csv",
"interim/1970-01-02-file-2.csv",
]
mock_read.side_effect = [
pd.DataFrame({
"Datum": ["1970-01-01", "1970-01-02"],
"NieuwOpgenomen": [100, 200],
"OverledenCumulatief": [100, 200],
"OverleeftCumulatief": [100, 200],
"Opgenomen": [100, 200],
"OpgenomenCumulatief": [100, 200],
"IntensiveCare": [100, 200],
"IntensiveCareCumulatief": [100, 200],
}),
pd.DataFrame({
"Datum": ["1970-01-01", "1970-01-02"],
"OverledenCumulatief": [200, 300],
"OverleeftCumulatief": [200, 100],
}),
]
task = MergeIntensiveCareDataset(self.config["collector"], Store())
task(name="test", input_folder="interim", output_folder="processed")
mock_list.assert_called_once_with("interim/*.csv")
mock_read.assert_has_calls([
mock.call("interim/1970-01-02-file-1.csv"),
mock.call("interim/1970-01-02-file-2.csv"),
])
mock_write.assert_called_once_with(mock.ANY,
"processed/test.csv",
index=False)
pd.testing.assert_frame_equal(
mock_write.call_args.args[0],
pd.DataFrame({
"Datum": ["1970-01-01", "1970-01-02"],
"NieuwOpgenomen": [100, 200],
"Opgenomen": [100, 200],
"OpgenomenCumulatief": [100, 200],
"IntensiveCare": [100, 200],
"IntensiveCareCumulatief": [100, 200],
"OverledenCumulatief": [200, 300],
"OverleeftCumulatief": [200, 200],
}),
check_dtype=False,
)
def test_run_old_format(self, mock_write, mock_read, mock_list):
mock_list.return_value = [
"raw/1970-01-01.json",
]
mock_read.side_effect = [
pd.DataFrame(
{
"date": ["1970-01-01"],
"newIntake": [100],
"diedCumulative": [200],
"survivedCumulative": [300],
"intakeCount": [400],
"intakeCumulative": [500],
"icCount": [600],
"icCumulative": [700],
},
),
]
task = CleanIntensiveCareDataset(self.config["collector"], Store())
task(input_folder="raw", output_folder="interim")
mock_list.assert_called_once_with("raw/*.json")
mock_read.assert_called_once_with("raw/1970-01-01.json")
mock_write.assert_called_once_with(
mock.ANY, "interim/1970-01-01.csv", index=False
)
pd.testing.assert_frame_equal(
mock_write.call_args_list[0].args[0],
pd.DataFrame(
{
"Datum": ["1970-01-01"],
"NieuwOpgenomen": [100],
"OverledenCumulatief": [200],
"OverleeftCumulatief": [300],
"Opgenomen": [400],
"OpgenomenCumulatief": [500],
"IntensiveCare": [600],
"IntensiveCareCumulatief": [700],
}
),
check_dtype=False,
)
def test_run_new_format(
self, mock_write, mock_read, mock_list, file, input_dataset, output_dataset,
):
mock_list.return_value = [file]
mock_read.return_value = pd.DataFrame(input_dataset)
task = CleanIntensiveCareDataset(self.config["collector"], Store())
task(input_folder="raw", output_folder="interim")
mock_list.assert_called_once_with("raw/*.json")
mock_read.assert_called_once_with(file)
mock_write.assert_called_once_with(
mock.ANY, f"interim/{file[4:-5]}.csv", index=False
)
pd.testing.assert_frame_equal(
mock_write.call_args_list[0].args[0],
pd.DataFrame(output_dataset),
check_dtype=False,
)
def test_run(
self,
mock_write,
mock_read,
mock_list,
input_date,
input_dataset,
output_dataset,
):
mock_list.return_value = [f"raw/{input_date}.csv"]
mock_read.side_effect = [
pd.DataFrame({
"Gemeentecode": [1],
"Gemeente": ["gemeente 1"],
"Provinciecode": [2],
"Provincie": ["provincie 2"],
}),
pd.DataFrame(input_dataset),
]
task = CleanMunicipalityDataset(self.config["collector"], Store())
task(input_folder="raw", output_folder="interim")
mock_list.assert_called_once_with("raw/*.csv")
mock_read.assert_has_calls([
mock.call("external/gemeenten.csv"),
mock.call(f"raw/{input_date}.csv")
])
mock_write.assert_called_once_with(mock.ANY,
f"interim/{input_date}.csv",
index=False)
pd.testing.assert_frame_equal(
mock_write.call_args.args[0],
pd.DataFrame(output_dataset),
check_dtype=False,
)
def test_run(self, mock_write, mock_get):
mock_get.side_effect = self.national_response
task = GetNationalDataset(self.config["collector"], Client(), Store())
task(output_folder="raw")
mock_get.assert_has_calls([
mock.call(self.config["collector"]["urls"]["national"]["cases"]),
mock.call(
self.config["collector"]["urls"]["national"]["hospitalized"]),
])
mock_write.assert_called_once_with(mock.ANY,
"raw/1970-01-01.csv",
index=False)
pd.testing.assert_frame_equal(
mock_write.call_args.args[0],
pd.DataFrame({
"PositiefGetest": [1000],
"Opgenomen": [2000],
"Overleden": [3000]
}),
check_dtype=False,
)
def test_write(self, mock_open):
# pylint: disable=protected-access
task = GetIntensiveCareDataset(None, Client(), Store())
task._write({"key": "value"}, "test.csv")
mock_open.assert_called_once_with("test.csv", "w")
def test_run_valid_input(self, mock_run):
task = GetIntensiveCareDataset(self.config["collector"], Client(),
Store())
task(output_folder="raw")
mock_run.assert_called_once_with({"output_folder": "raw"})
def test_run(self, mock_write, mock_read, mock_list):
mock_list.return_value = [
"interim/1970-01-01.csv",
"interim/1970-01-02.csv",
"interim/1970-01-03.csv",
]
mock_read.side_effect = [
pd.DataFrame(
{
"Gemeentecode": [1],
"PositiefGetest": [100],
"Gemeente": ["gemeente 1"],
"Provinciecode": [2],
"Provincie": ["provincie 2"],
"Datum": ["1970-01-01"],
}
),
pd.DataFrame(
{
"Gemeentecode": [1],
"Opgenomen": [150],
"Gemeente": ["gemeente 1"],
"Provinciecode": [2],
"Provincie": ["provincie 2"],
"Datum": ["1970-01-02"],
}
),
pd.DataFrame(
{
"Gemeentecode": [1],
"PositiefGetest": [200],
"Gemeente": ["gemeente 1"],
"Provinciecode": [2],
"Provincie": ["provincie 2"],
"Datum": ["1970-01-03"],
}
),
]
task = MergeMunicipalityDataset(self.config["collector"], Store())
task(name="test", input_folder="interim", output_folder="processed")
mock_list.assert_called_once_with("interim/*.csv")
mock_read.assert_has_calls(
[
mock.call("interim/1970-01-01.csv"),
mock.call("interim/1970-01-02.csv"),
mock.call("interim/1970-01-03.csv"),
]
)
mock_write.assert_called_once_with(mock.ANY, "processed/test.csv", index=False)
pd.testing.assert_frame_equal(
mock_write.call_args.args[0],
pd.DataFrame(
{
"Gemeentecode": [1, 1, 1],
"PositiefGetest": [100, 150, 200],
"Gemeente": ["gemeente 1", "gemeente 1", "gemeente 1"],
"Provinciecode": [2, 2, 2],
"Provincie": ["provincie 2", "provincie 2", "provincie 2"],
"Datum": ["1970-01-01", "1970-01-02", "1970-01-03"],
}
),
check_dtype=False,
)
