def results(project, apikey, run, watch, server, output):
"""
Check to see if results are available for a particular mapping
and if so download.
Authentication is carried out using the --apikey option which
must be provided. Depending on the server operating mode this
may return a mask, a linkage table, or a permutation. Consult
the entity service documentation for details.
"""
status = run_get_status(server, project, run, apikey)
log(format_run_status(status))
if watch:
for status in watch_run_status(server, project, run, apikey,
24 * 60 * 60):
log(format_run_status(status))
if status['state'] == 'completed':
log("Downloading result")
response = run_get_result_text(server, project, run, apikey)
log("Received result")
print(response, file=output)
elif status['state'] == 'error':
log("There was an error")
error_result = run_get_result_text(server, project, run, apikey)
print(error_result, file=output)
else:
log("No result yet")
def test_watch_run_time_out(requests_mock):
requests_mock.get('http://testing-es-url/api/v1/projects/pid/runs/rid/status', json={'state': 'running'}, status_code=200)
with pytest.raises(TimeoutError):
for update in rest_client.watch_run_status('http://testing-es-url', 'pid', 'rid', 'apikey', timeout=0.5, update_period=0.01):
assert update['state'] == 'running'
assert requests_mock.last_request.headers['Authorization'] == 'apikey'
def test_project_run(self):
p = self._create_project()
p_id = p['project_id']
upload_response_1 = rest_client.project_upload_clks(
self.url, p_id, p['update_tokens'][0], self.clk_data_1)
upload_response_2 = rest_client.project_upload_clks(
self.url, p_id, p['update_tokens'][1], self.clk_data_2)
run_response = rest_client.run_create(self.url,
p_id,
p['result_token'],
0.999,
name='clkhash rest client test')
assert 'run_id' in run_response
r_id = run_response['run_id']
with pytest.raises(ServiceError):
rest_client.run_get_status(self.url, p_id, 'invalid-run-id',
p['result_token'])
with pytest.raises(ServiceError):
rest_client.run_get_status(self.url, p_id, r_id, 'invalid-token')
status1 = rest_client.run_get_status(self.url, p_id, r_id,
p['result_token'])
assert 'state' in status1
assert 'stages' in status1
print(rest_client.format_run_status(status1))
# Check we can watch the run progress this will raise if not
# completed in 10 seconds
for status_update in rest_client.watch_run_status(
self.url, p_id, r_id, p['result_token'], 10, 0.5):
print(rest_client.format_run_status(status_update))
# Check that we can still "wait" on a completed run and get a valid
# status
status2 = rest_client.wait_for_run(self.url, p_id, r_id,
p['result_token'], 10)
assert status2['state'] == 'completed'
coord_result_raw = rest_client.run_get_result_text(
self.url, p_id, r_id, p['result_token'])
coord_result = json.loads(coord_result_raw)
assert 'mask' in coord_result
assert len(coord_result['mask']) == 1000
assert coord_result['mask'].count(1) > 10
result_a = json.loads(
rest_client.run_get_result_text(
self.url, p_id, r_id, upload_response_1['receipt_token']))
result_b = json.loads(
rest_client.run_get_result_text(
self.url, p_id, r_id, upload_response_2['receipt_token']))
assert 'permutation' in result_a
assert 'rows' in result_a
assert 1000 == result_b['rows'] == result_a['rows']
rest_client.run_delete(self.url, p_id, r_id, p['result_token'])
rest_client.project_delete(self.url, p_id, p['result_token'])
def test_watch_run_server_error(requests_mock):
requests_mock.register_uri(
'GET',
'http://testing-es-url/api/v1/projects/pid/runs/rid/status',
[
{'json': {'state': 'running', 'current_stage': {'number': 1, 'description': 'A', 'progress': {'relative': 0.4}}, 'stages': 2}, 'status_code': 200},
{'json': {'state': 'running', 'current_stage': {'number': 1, 'description': 'A', 'progress': {'relative': 0.8}}, 'stages': 2}, 'status_code': 200},
{'text': 'SERVER ERROR', 'status_code': 500},
]
)
with pytest.raises(ServiceError, match=r'.*SERVER ERROR') as exec_info:
for update in rest_client.watch_run_status('http://testing-es-url', 'pid', 'rid', 'apikey', timeout=None, update_period=0.01):
assert update['state'] == 'running'
assert 'A' in str(rest_client.format_run_status(update))
assert "SERVER ERROR" in str(exec_info.value)
def test_watch_run_rate_limited(requests_mock):
requests_mock.register_uri(
'GET', 'http://testing-es-url/api/v1/projects/pid/runs/rid/status',
[{
'json': {
'state': 'running'
},
'status_code': 200
}, {
'json': {
'state': 'running',
'progress': {}
},
'status_code': 200
}, {
'text': '',
'status_code': 503
}, {
'text': '',
'status_code': 503
}, {
'json': {
'state': 'running'
},
'status_code': 200
}, {
'json': {
'state': 'completed'
},
'status_code': 200
}])
for update in rest_client.watch_run_status('http://testing-es-url',
'pid',
'rid',
'apikey',
timeout=None,
update_period=0.01):
assert update['state'] in {'running', 'completed'}
assert update['state'] == 'completed'
assert requests_mock.last_request.headers['Authorization'] == 'apikey'
def test_watch_run_no_repeated_updates(requests_mock):
requests_mock.register_uri(
'GET',
'http://testing-es-url/api/v1/projects/pid/runs/rid/status',
[
{'json': {'state': 'running', 'current_stage': {'number': 1, 'description': 'A', 'progress': {'relative': 0.4}}, 'stages': 2}, 'status_code': 200},
{'json': {'state': 'running', 'current_stage': {'number': 1, 'description': 'A', 'progress': {'relative': 0.4}}, 'stages': 2}, 'status_code': 200},
{'json': {'state': 'running', 'current_stage': {'number': 1, 'description': 'A', 'progress': {'relative': 0.4}}, 'stages': 2}, 'status_code': 200},
{'json': {'state': 'running', 'current_stage': {'number': 1, 'description': 'A', 'progress': {'relative': 0.8}}, 'stages': 2}, 'status_code': 200},
{'json': {'state': 'completed', 'stages': 2}, 'status_code': 200},
]
)
number_updates = 0
for update in rest_client.watch_run_status('http://testing-es-url', 'pid', 'rid', 'apikey', timeout=None, update_period=0.01):
assert update['state'] in {'running', 'completed'}
number_updates += 1
assert update['state'] == 'completed'
assert 3 == number_updates