def before_all(context):
""" Runs once before all tests.
Set up some global state necessary to the tests and test runner.
* Get the vendor config and attach it to the context.
* Authorize against the vendor FHIR server and store the authorization.
* Get the test plan so that we can show a progress meter.
* Load the conformance statement so we know which resources are supported.
"""
# Get the vendor config and attach it to the context.
vendor = getattr(context.config, 'vendor', os.getenv('VENDOR'))
override = getattr(context.config, 'override', os.getenv('CONFIG_OVERRIDE', ''))
vendor_config = get_config(vendor.lower(), override)
context.vendor_config = vendor_config
# Set the ElasticSearch logging endpoint
context.config.es_url = os.getenv('ES_URL')
# Authorize against the vendor FHIR server.
context.oauth = factory(vendor_config)
try:
context.oauth.authorize()
if getattr(context.oauth, 'patient', None) is not None:
vendor_config['api']['patient'] = context.oauth.patient
except AssertionError as error:
logging.error(utils.bad_response_assert(error.args[0], ''))
except authorize.AuthorizationException as err:
error = oauth.ERROR_SELENIUM_SCREENSHOT.format(
err.args[0],
err.args[1],
context.vendor_config['host'],
)
raise Exception(error)
# Get the test plan so that we can show a progress meter.
context.config.plan = []
# There is no other way to get a feature list from the context.
# Since this is for display purposes only, this should be safe.
features = context._runner.features # pylint: disable=protected-access
for feature in features:
scenariolist = []
context.config.plan.append({
'name': feature.name,
'location': str(feature.location),
'scenarios': scenariolist})
for scenario in feature.scenarios:
scenariolist.append({
'name': scenario.name,
'location': str(scenario.location)})
# Download the conformance statement
try:
context.conformance = fhir.get_conformance_statement(vendor_config['api']['url'])
except ValueError as error:
context.conformance = None
logging.error(utils.bad_response_assert(error.response, ''))
# Define a global cache
context.cache = Cache(redis.StrictRedis())
def step_impl(context, field_name, value_set_url):
path = field_name.split('.')
filter_type = path.pop(0)
resources = get_resources(context.response.json(), filter_type)
for res in resources:
found = traverse(res, path)
if isinstance(found, str):
found = [found]
elif isinstance(found, dict):
assert 'coding' in found, \
utils.bad_response_assert(context.response,
ERROR_CODING_MISSING,
field_name=field_name,
json=json.dumps(found, indent=2))
found = [coding.get('code') for coding in found.get('coding')]
for code in found:
try:
valid = systems.validate_code(code, value_set_url)
except systems.SystemNotRecognized:
valid = False
assert valid, utils.bad_response_assert(context.response,
ERROR_INVALID_BINDING,
code=code,
system=value_set_url)
def check_reference(reference, orig, context):
""" Follow references and make sure they exist.
Args:
reference (str): A reference in the format:
* Resource/id
* http://example.com/base/Resource/id
* #id
orig (dict): The original resource, used when checking contained references.
context: The behave context
"""
if reference.startswith('#'):
matches = [
contained for contained in orig.get('contained', [])
if contained['id'] == reference[1:]
]
assert len(matches) == 1, \
utils.bad_response_assert(context.response,
ERROR_UNRESOLVED_REFERENCE,
reference=reference)
else:
response = utils.get_resource(context, reference)
assert int(response.status_code) == 200, \
utils.bad_response_assert(context.response,
ERROR_UNRESOLVED_REFERENCE,
reference=reference)
def check_reference(reference, orig, context):
""" Follow references and make sure they exist.
Args:
reference (str): A reference in the format:
* Resource/id
* http://example.com/base/Resource/id
* #id
orig (dict): The original resource, used when checking contained references.
context: The behave context
"""
if reference.startswith('#'):
matches = [contained for contained in orig.get('contained', [])
if contained['id'] == reference[1:]]
assert len(matches) == 1, \
utils.bad_response_assert(context.response,
ERROR_UNRESOLVED_REFERENCE,
reference=reference)
else:
response = utils.get_resource(context, reference)
assert int(response.status_code) == 200, \
utils.bad_response_assert(context.response,
ERROR_UNRESOLVED_REFERENCE,
reference=reference)
def before_all(context):
""" Runs once before all tests.
Set up some global state necessary to the tests and test runner.
* Get the vendor config and attach it to the context.
* Authorize against the vendor FHIR server and store the authorization.
* Get the test plan so that we can show a progress meter.
* Load the conformance statement so we know which resources are supported.
"""
# Get the vendor config and attach it to the context.
vendor = getattr(context.config, 'vendor', os.getenv('VENDOR'))
vendor_config = get_config(vendor.lower())
context.vendor_config = vendor_config
# Authorize against the vendor FHIR server.
context.oauth = factory(vendor_config)
try:
context.oauth.authorize()
if getattr(context.oauth, 'patient', None) is not None:
vendor_config['api']['patient'] = context.oauth.patient
except AssertionError as error:
logging.error(utils.bad_response_assert(error.args[0], ''))
except authorize.AuthorizationException as err:
error = oauth.ERROR_SELENIUM_SCREENSHOT.format(
err.args[0],
err.args[1],
context.vendor_config['host'],
)
raise Exception(error)
# Get the test plan so that we can show a progress meter.
context.config.plan = []
# There is no other way to get a feature list from the context.
# Since this is for display purposes only, this should be safe.
features = context._runner.features # pylint: disable=protected-access
for feature in features:
scenariolist = []
context.config.plan.append({
'name': feature.name,
'location': str(feature.location),
'scenarios': scenariolist
})
for scenario in feature.scenarios:
scenariolist.append({
'name': scenario.name,
'location': str(scenario.location)
})
# Download the conformance statement
try:
context.conformance = fhir.get_conformance_statement(
vendor_config['api']['url'])
except ValueError as error:
context.conformance = None
logging.error(utils.bad_response_assert(error.response, ''))
def step_impl(context, field_name, value):
resource = context.response.json()
assert resource.get(field_name) is not None, \
utils.bad_response_assert(context.response,
ERROR_FIELD_MISSING,
field_name=field_name)
assert resource[field_name] == value, \
utils.bad_response_assert(context.response,
ERROR_FIELD_UNEXPECTED_VALUE,
field_name=field_name,
expected=value,
actual=resource[field_name])
def step_impl(context, field_name, value):
resource = context.response.json()
assert resource.get(field_name) is not None, \
utils.bad_response_assert(context.response,
ERROR_FIELD_MISSING,
field_name=field_name)
assert resource[field_name] == value, \
utils.bad_response_assert(context.response,
ERROR_FIELD_UNEXPECTED_VALUE,
field_name=field_name,
expected=value,
actual=resource[field_name])
def step_impl(context, field_name, value):
path = field_name.split('.')
filter_type = path.pop(0)
resources = get_resources(context.response.json(), filter_type)
for res in resources:
found = traverse(res, path)
assert found, utils.bad_response_assert(context.response,
ERROR_FIELD_NOT_PRESENT,
field=field_name,
json=json.dumps(res, indent=2))
assert value in found, utils.bad_response_assert(context.response,
ERROR_WRONG_FIXED,
values=found,
value=value)
def step_impl(context, field_name):
resource = context.response.json()
assert resource.get(field_name) is not None, \
utils.bad_response_assert(context.response,
ERROR_FIELD_MISSING,
field_name=field_name)
def assert_field_value_matches(context, resource, field_name, expected_value):
assert resource[field_name] == expected_value, \
utils.bad_response_assert(context.response,
ERROR_FIELD_UNEXPECTED_VALUE,
field_name=field_name,
expected=expected_value,
actual=resource[field_name])
def assert_field_value_matches(context, resource, field_name, expected_value):
assert resource[field_name] == expected_value, \
utils.bad_response_assert(context.response,
ERROR_FIELD_UNEXPECTED_VALUE,
field_name=field_name,
expected=expected_value,
actual=resource[field_name])
def step_impl(context):
resource = context.response.json()
assert "resourceType" in resource, \
"Resource has no resourceType: {res}".format(res=resource)
url = "{url}{resource}/$validate".format(
url='http://api:8080/baseDstu2/',
resource=resource['resourceType'],
)
headers = {
'Authorization': 'Bearer {0}'.format(context.oauth.access_token),
'Accept': 'application/json',
'Accept-Encoding': 'deflate,sdch',
}
try:
resp = requests.post(url, json=resource, headers=headers)
except requests.exceptions.ConnectionError as err:
return context.scenario.skip(reason=str(err))
outcome = resp.json()
issues = [
issue for issue in outcome.get('issue')
if issue.get('severity') == 'error'
]
assert not issues, \
utils.bad_response_assert(context.response,
ERROR_VALIDATION_ISSUES,
issues=json.dumps(issues, indent=4))
def step_impl(context, response_code):
response_code = int(response_code)
assert context.response.status_code != response_code, \
utils.bad_response_assert(context.response,
ERROR_STATUS_CODE,
status_code=context.response.status_code)
def step_impl(context, resource_type, field_name):
if not StepDecider(context).should_run_test():
return
path = field_name.split('.')
filter_type = path.pop(0)
resources = get_resources(context.response.json(), filter_type)
for res in resources:
try:
reference = utils.traverse(res, path).get('reference')
# Validate the reference for FHIR compliance formatting.
# http://hl7.org/fhir/references.html
reference_regex = r'((http|https)://([A-Za-z0-9\\\.\:\%\$]\/)*)?(' + \
resource_type + r')\/[A-Za-z0-9\-\.]{1,64}(\/_history\/[A-Za-z0-9\-\.]{1,64})?'
compiled_regex = re.compile(reference_regex)
regex_search_results = compiled_regex.search(reference)
except AttributeError:
reference = ''
assert regex_search_results, \
utils.bad_response_assert(context.response,
ERROR_REFERENCE_MATCH,
reference=reference,
resource_type=resource_type)
def step_impl(context, field_name):
resource = context.response.json()
assert resource.get(field_name) is not None, \
utils.bad_response_assert(context.response,
ERROR_FIELD_MISSING,
field_name=field_name)
def step_impl(context, field):
data = context.response.json()
assert field in data, \
utils.bad_response_assert(context.response,
ERROR_MISSING_FIELD,
field=field,
response_fields=list(data.keys()))
def before_all(context):
""" Runs once before all tests.
Set up some global state necessary to the tests and test runner.
* Get the vendor config and attach it to the context.
* Authorize against the vendor FHIR server and store the authorization.
* Get the test plan so that we can show a progress meter.
* Load the conformance statement so we know which resources are supported.
"""
# Get the vendor config and attach it to the context.
vendor = getattr(context.config, 'vendor', os.getenv('VENDOR'))
vendor_config = get_config(vendor.lower())
context.vendor_config = vendor_config
# Authorize against the vendor FHIR server.
context.oauth = factory(vendor_config)
try:
context.oauth.authorize()
if getattr(context.oauth, 'patient', None) is not None:
vendor_config['api']['patient'] = context.oauth.patient
except AssertionError as error:
logging.error(utils.bad_response_assert(error.args[0], ''))
# Get the test plan so that we can show a progress meter.
context.config.plan = []
# There is no other way to get a feature list from the context.
# Since this is for display purposes only, this should be safe.
features = context._runner.features # pylint: disable=protected-access
for feature in features:
scenariolist = []
context.config.plan.append({
'name': feature.name,
'location': str(feature.location),
'scenarios': scenariolist})
for scenario in feature.scenarios:
scenariolist.append({
'name': scenario.name,
'location': str(scenario.location)})
# Download the conformance statement
try:
context.conformance = fhir.get_conformance_statement(vendor_config['api']['url'])
except ValueError as error:
context.conformance = None
logging.error(utils.bad_response_assert(error.response, ''))
def step_impl(context):
resource = context.response.json()
entries = resource.get('entry', [])
assert len(entries) >= 1, \
utils.bad_response_assert(context.response,
ERROR_ENTRY_COUNT,
count=len(entries))
def step_impl(context):
resource = context.response.json()
entries = resource.get('entry', [])
assert len(entries) >= 1, \
utils.bad_response_assert(context.response,
ERROR_ENTRY_COUNT,
count=len(entries))
def step_impl(context):
query = s4s.MU_CCDS_MAPPINGS['Patient demographics']
query = query.format(patientId=context.vendor_config['versioned_api'].get('patient'))
response = utils.get_resource(context, query)
assert response.status_code == 200, \
utils.bad_response_assert(response,
ERROR_NO_ACCESS)
def step_impl(context):
query = s4s.MU_CCDS_MAPPINGS['Patient demographics']
query = query.format(patientId=context.vendor_config['api'].get('patient'))
response = utils.get_resource(context, query)
assert response.status_code == 200, \
utils.bad_response_assert(response,
ERROR_NO_ACCESS)
def step_impl(context, name, field_name):
path = field_name.split('.')
filter_type = path.pop(0)
resources = get_resources(context.response.json(), filter_type)
for res in resources:
found = traverse(res, path)
assert len(found) > 0, utils.bad_response_assert(context.response,
ERROR_REQUIRED,
name=name)
def step_impl(context, resource_type):
resource = context.response.json()
entries = [entry['resource'] for entry in resource.get('entry', [])
if entry.get('search', {}).get('mode', 'match') == 'match' and
entry.get('resource', {}).get('resourceType') == resource_type]
assert len(entries) >= 1, \
utils.bad_response_assert(context.response,
ERROR_ENTRY_COUNT,
count=len(entries))
def step_impl(context, field_name, value):
path = field_name.split('.')
filter_type = path.pop(0)
resources = get_resources(context.response.json(), filter_type)
found_one = found_at_least_one(resources, path, value)
assert found_one, utils.bad_response_assert(response=context.response,
message=ERROR_NO_VALID_ENTRIES,
field_name=field_name,
value=value)
def step_impl(context, resource_type):
resource = context.response.json()
entries = [
entry['resource'] for entry in resource.get('entry', [])
if entry.get('search', {}).get('mode', 'match') == 'match'
and entry.get('resource', {}).get('resourceType') == resource_type
]
assert len(entries) >= 1, \
utils.bad_response_assert(context.response,
ERROR_ENTRY_COUNT,
count=len(entries))
def step_impl(context, field_name, value):
path = field_name.split('.')
filter_type = path.pop(0)
resources = get_resources(context.response.json(), filter_type)
found_one = found_at_least_one(resources, path, value)
assert found_one, utils.bad_response_assert(
response=context.response,
message=ERROR_NO_VALID_ENTRIES,
field_name=field_name,
value=value)
def step_impl(context, field_name):
resource = context.response.json()
if resource['resourceType'] == 'Bundle':
entries = [entry['resource'] for entry in resource.get('entry', [])]
else:
entries = [resource]
for entry in entries:
assert entry.get(field_name) is not None, \
utils.bad_response_assert(context.response,
ERROR_FIELD_MISSING,
field_name=field_name)
def step_impl(context, field_name):
resource = context.response.json()
if resource['resourceType'] == 'Bundle':
entries = [entry['resource'] for entry in resource.get('entry', [])]
else:
entries = [resource]
for entry in entries:
assert entry.get(field_name) is not None, \
utils.bad_response_assert(context.response,
ERROR_FIELD_MISSING,
field_name=field_name)
def step_impl(context, name, field_name):
if not StepDecider(context).should_run_test():
return
path = field_name.split('.')
filter_type = path.pop(0)
resources = get_resources(context.response.json(), filter_type)
for res in resources:
found = utils.traverse(res, path)
assert len(found) > 0, utils.bad_response_assert(context.response,
ERROR_REQUIRED,
name=name)
def step_impl(context, resource_type, field_name):
path = field_name.split('.')
filter_type = path.pop(0)
resources = get_resources(context.response.json(), filter_type)
for res in resources:
try:
reference = traverse(res, path).get('reference')
except AttributeError:
reference = ''
assert reference.startswith(resource_type), \
utils.bad_response_assert(context.response,
ERROR_REFERENCE_MATCH,
reference=reference,
resource_type=resource_type)
def step_impl(context, field_name, sub_field):
path = field_name.split('.')
filter_type = path.pop(0)
sub_path = sub_field.split('.')
sub_type = sub_path.pop(0)
resources = get_resources(context.response.json(), filter_type)
for res in resources:
found = traverse(res, path)
for item in found:
match = traverse(item, sub_path)
assert match is not None, \
utils.bad_response_assert(context.response,
ERROR_REQUIRED,
name=sub_type)
def step_impl(context, name, field_one_name, field_two_name):
path_one = field_one_name.split('.')
path_two = field_two_name.split('.')
filter_type = path_one.pop(0)
assert filter_type == path_two.pop(0)
resources = get_resources(context.response.json(), filter_type)
for res in resources:
found_one = traverse(res, path_one)
found_two = traverse(res, path_two)
assert (found_one is not None) or (found_two is not None), \
utils.bad_response_assert(context.response,
ERROR_REQUIRED,
name=name)
def step_impl(context):
resource = context.response.json()
if resource['resourceType'] == 'Bundle':
entries = [
entry['resource'] for entry in resource.get('entry', [])
if entry.get('search', {}).get('mode', 'match') == 'match'
]
else:
entries = [resource]
context.scenario.systems = []
bad_codings = []
for entry in entries:
found = utils.find_named_key(entry, 'coding')
for codings in found:
for coding in codings:
if not coding:
bad_codings.append(coding)
continue
try:
valid = systems.validate_coding(coding)
recognized = True
except systems.SystemNotRecognized:
valid = True
recognized = False
context.scenario.systems.append({
'system': coding.get('system'),
'code': coding.get('code'),
'valid': valid,
'recognized': recognized,
})
if not valid:
bad_codings.append(coding)
assert not bad_codings, \
utils.bad_response_assert(context.response,
'Bad codings: {codings}',
codings=json.dumps(bad_codings, indent=2))
def step_impl(context):
resource = context.response.json()
if resource['resourceType'] == 'Bundle':
entries = [entry['resource'] for entry in resource.get('entry', [])
if entry.get('search', {}).get('mode', 'match') == 'match']
else:
entries = [resource]
context.scenario.systems = []
bad_codings = []
for entry in entries:
found = utils.find_named_key(entry, 'coding')
for codings in found:
for coding in codings:
if not coding:
bad_codings.append(coding)
continue
try:
valid = systems.validate_coding(coding)
recognized = True
except systems.SystemNotRecognized:
valid = True
recognized = False
context.scenario.systems.append({
'system': coding.get('system'),
'code': coding.get('code'),
'valid': valid,
'recognized': recognized,
})
if not valid:
bad_codings.append(coding)
assert not bad_codings, \
utils.bad_response_assert(context.response,
'Bad codings: {codings}',
codings=json.dumps(bad_codings, indent=2))
def step_impl(context, field_string, resource):
if not StepDecider(context).should_run_test():
return
fields_to_find = field_string.split(",")
resources = get_resources(context.response.json(), resource)
valid_resource_ids = set([
res.get("id") for res in resources
if not ArgonautObservationDecider(res).should_validate() or
utils.has_one_of(res, fields_to_find)])
all_resource_ids = set([res.get("id") for res in resources])
invalid_resource_ids = all_resource_ids - valid_resource_ids
assert len(invalid_resource_ids) == 0, \
utils.bad_response_assert(context.response,
ERROR_MISSING_FIELD,
resource_ids=', '.join(invalid_resource_ids),
field_list=field_string)
def step_impl(context, version_name):
resource = context.response.json()
assert "resourceType" in resource, \
"Resource has no resourceType: {res}".format(res=resource)
server_config_key = "API_SERVER_{server_version}".format(server_version=version_name)
assert server_config_key in context.env_config, \
"No API Server configured for this version ({v}).".format(v=version_name)
url = "{url}/{resource}/$validate".format(
url=context.env_config[server_config_key],
resource=resource['resourceType'],
)
headers = {
'Authorization': 'Bearer {0}'.format(context.oauth.access_token),
'Accept': 'application/json',
'Accept-Encoding': 'deflate,sdch',
}
try:
resp = requests.post(url, json=resource, headers=headers)
except requests.exceptions.ConnectionError as err:
return context.scenario.skip(reason=str(err))
outcome = resp.json()
issues = [issue for issue in outcome.get('issue')
if issue.get('severity') == 'error']
assert not issues, \
utils.bad_response_assert(context.response,
ERROR_VALIDATION_ISSUES,
issues=json.dumps(issues, indent=4))
def step_impl(context, version_name):
resource = context.response.json()
assert "resourceType" in resource, \
"Resource has no resourceType: {res}".format(res=resource)
server_config_key = "API_SERVER_{server_version}".format(server_version=version_name)
assert server_config_key in context.env_config, \
"No API Server configured for this version ({v}).".format(v=version_name)
url = "{url}/{resource}/$validate".format(
url=context.env_config[server_config_key],
resource=resource['resourceType'],
)
headers = {
'Authorization': 'Bearer {0}'.format(context.oauth.access_token),
'Accept': 'application/json',
'Accept-Encoding': 'deflate,sdch',
}
try:
resp = requests.post(url, json=resource, headers=headers)
except requests.exceptions.ConnectionError as err:
return context.scenario.skip(reason=str(err))
outcome = resp.json()
issues = [issue for issue in outcome.get('issue')
if issue.get('severity') == 'error']
assert not issues, \
utils.bad_response_assert(context.response,
ERROR_VALIDATION_ISSUES,
issues=json.dumps(issues, indent=4))
def assert_field_exists(context, resource, field_name):
assert resource.get(field_name) is not None, \
utils.bad_response_assert(context.response,
ERROR_FIELD_MISSING,
field_name=field_name)
def before_all(context):
""" Runs once before all tests.
Set up some global state necessary to the tests and test runner.
* Get the vendor config and attach it to the context.
* Authorize against the vendor FHIR server and store the authorization.
* Get the test plan so that we can show a progress meter.
* Load the conformance statement so we know which resources are supported.
"""
# Get the vendor config and attach it to the context.
vendor = getattr(context.config, 'vendor', os.getenv('VENDOR'))
override = getattr(context.config, 'override',
os.getenv('CONFIG_OVERRIDE', ''))
vendor_config = get_vendor_config(vendor, override)
# Get configuration from the test server's environment.
env_config = get_env_config()
# Attempt to retrieve the security URL for this version.
vendor_config['versioned_auth']['aud'] = vendor_config['versioned_api'][
'url']
context.vendor_config = copy.deepcopy(vendor_config)
context.env_config = copy.deepcopy(env_config)
# Filter out any tagged vendor config steps
steps = vendor_config['versioned_auth'].get('steps', [])
steps = [step for step in steps if 'when' not in step]
vendor_config['versioned_auth']['steps'] = steps
# Set the ElasticSearch logging endpoint
context.config.es_url = os.getenv('ES_URL')
# Authorize against the vendor FHIR server.
try:
context.oauth = factory(vendor_config)
context.oauth.authorize()
if getattr(context.oauth, 'patient', None) is not None:
context.vendor_config['versioned_api'][
'patient'] = context.oauth.patient
except AssertionError as error:
logging.error(utils.bad_response_assert(error.args[0], ''))
raise Exception(utils.bad_response_assert(error.args[0], ''))
except authorize.AuthorizationException as err:
error = oauth.ERROR_SELENIUM_SCREENSHOT.format(
err.args[0],
err.args[1],
err.args[2],
context.vendor_config['host'],
)
raise Exception(error)
except ValueError as error:
logging.error(utils.bad_response_assert(error.response, ''))
raise Exception(utils.bad_response_assert(error.response, ''))
# Get the test plan so that we can show a progress meter.
context.config.plan = []
# There is no other way to get a feature list from the context.
# Since this is for display purposes only, this should be safe.
features = context._runner.features # pylint: disable=protected-access
for feature in features:
scenariolist = []
context.config.plan.append({
'name': feature.name,
'location': str(feature.location),
'scenarios': scenariolist
})
for scenario in feature.scenarios:
scenariolist.append({
'name': scenario.name,
'location': str(scenario.location)
})
# Download the conformance statement
try:
context.conformance = fhir.get_conformance_statement(
vendor_config['versioned_auth']['aud'])
except ValueError as error:
context.conformance = None
logging.error(utils.bad_response_assert(error.response, ''))
# Define a global cache
context.cache = Cache(redis.StrictRedis())
def assert_field_exists(context, resource, field_name):
assert resource.get(field_name) is not None, \
utils.bad_response_assert(context.response,
ERROR_FIELD_MISSING,
field_name=field_name)