def test_duplicate_identifier(self):
swagger_spec = swagger(self.app)
identifier = Identifier(system='https://unique.org', value='abc123')
data = swagger_spec['definitions']['QuestionnaireResponse']['example']
data['identifier'] = identifier.as_fhir()
self.promote_user(role_name=ROLE.PATIENT.value)
self.login()
response = self.client.post(
'/api/patient/{}/assessment'.format(TEST_USER_ID), json=data)
assert response.status_code == 200
# Submit a second, with the same identifier, expect error
data2 = swagger_spec['definitions']['QuestionnaireResponse']['example']
data2['identifier'] = identifier.as_fhir()
response = self.client.post(
'/api/patient/{}/assessment'.format(TEST_USER_ID), json=data2)
assert response.status_code == 409
self.test_user = db.session.merge(self.test_user)
assert self.test_user.questionnaire_responses.count() == 1
# And a third, with just the id.value changed
data3 = swagger_spec['definitions']['QuestionnaireResponse']['example']
identifier.value = 'do-over'
data3['identifier'] = identifier.as_fhir()
response = self.client.post(
'/api/patient/{}/assessment'.format(TEST_USER_ID), json=data3)
assert response.status_code == 200
self.test_user = db.session.merge(self.test_user)
assert self.test_user.questionnaire_responses.count() == 2
def test_duplicate_identifier(self):
swagger_spec = swagger(self.app)
identifier = Identifier(system='https://unique.org', value='abc123')
data = swagger_spec['definitions']['QuestionnaireResponse']['example']
data['identifier'] = identifier.as_fhir()
self.promote_user(role_name=ROLE.PATIENT.value)
self.login()
response = self.client.post(
'/api/patient/{}/assessment'.format(TEST_USER_ID), json=data)
assert response.status_code == 200
# Submit a second, with the same identifier, expect error
data2 = swagger_spec['definitions']['QuestionnaireResponse']['example']
data2['identifier'] = identifier.as_fhir()
response = self.client.post(
'/api/patient/{}/assessment'.format(TEST_USER_ID), json=data2)
assert response.status_code == 409
self.test_user = db.session.merge(self.test_user)
assert self.test_user.questionnaire_responses.count() == 1
# And a third, with just the id.value changed
data3 = swagger_spec['definitions']['QuestionnaireResponse']['example']
identifier.value = 'do-over'
data3['identifier'] = identifier.as_fhir()
response = self.client.post(
'/api/patient/{}/assessment'.format(TEST_USER_ID), json=data3)
assert response.status_code == 200
self.test_user = db.session.merge(self.test_user)
assert self.test_user.questionnaire_responses.count() == 2
def test_organization_identifiers_update(self):
with open(
os.path.join(os.path.dirname(__file__),
'organization-example-gastro.json'),
'r') as fhir_data:
data = json.load(fhir_data)
self.promote_user(role_name=ROLE.ADMIN.value)
self.login()
before = Organization.query.count()
response = self.client.post('/api/organization',
content_type='application/json',
data=json.dumps(data))
assert response.status_code == 200
assert Organization.query.count() == before + 1
# the gastro file contains a single identifier - add
# a second one and PUT, expecting we get two total
alias = Identifier(system=SHORTCUT_ALIAS,
value='foobar',
use='secondary')
org = Organization.query.filter_by(name='Gastroenterology').one()
data['identifier'].append(alias.as_fhir())
response = self.client.put('/api/organization/{}'.format(org.id),
content_type='application/json',
data=json.dumps(data))
assert response.status_code == 200
# obtain the org from the db, check the identifiers
org = Organization.query.filter_by(name='Gastroenterology').one()
assert 2 == org.identifiers.count()
def test_organization_identifiers_update(self):
with open(os.path.join(
os.path.dirname(__file__),
'organization-example-gastro.json'), 'r'
) as fhir_data:
data = json.load(fhir_data)
self.promote_user(role_name=ROLE.ADMIN.value)
self.login()
before = Organization.query.count()
response = self.client.post(
'/api/organization', content_type='application/json',
data=json.dumps(data))
assert response.status_code == 200
assert Organization.query.count() == before + 1
# the gastro file contains a single identifier - add
# a second one and PUT, expecting we get two total
alias = Identifier(system=SHORTCUT_ALIAS, value='foobar',
use='secondary')
org = Organization.query.filter_by(name='Gastroenterology').one()
data['identifier'].append(alias.as_fhir())
response = self.client.put(
'/api/organization/{}'.format(org.id),
content_type='application/json', data=json.dumps(data))
assert response.status_code == 200
# obtain the org from the db, check the identifiers
org = Organization.query.filter_by(name='Gastroenterology').one()
assert 2 == org.identifiers.count()
def test_invalid_identifier(self):
swagger_spec = swagger(self.app)
identifier = Identifier(system=None, value='abc-123')
data = swagger_spec['definitions']['QuestionnaireResponse']['example']
data['identifier'] = identifier.as_fhir()
self.promote_user(role_name=ROLE.PATIENT.value)
self.login()
response = self.client.post(
'/api/patient/{}/assessment'.format(TEST_USER_ID), json=data)
assert response.status_code == 400
def test_invalid_identifier(self):
swagger_spec = swagger(self.app)
identifier = Identifier(system=None, value='abc-123')
data = swagger_spec['definitions']['QuestionnaireResponse']['example']
data['identifier'] = identifier.as_fhir()
self.promote_user(role_name=ROLE.PATIENT.value)
self.login()
response = self.client.post(
'/api/patient/{}/assessment'.format(TEST_USER_ID), json=data)
assert response.status_code == 400
def test_ident_search(self):
ident = Identifier(system='http://example.com', value='testy')
ui = UserIdentifier(identifier=ident, user_id=TEST_USER_ID)
with SessionScope(db):
db.session.add(ident)
db.session.add(ui)
db.session.commit()
self.promote_user(role_name=ROLE.PATIENT)
self.login()
ident = db.session.merge(ident)
rv = self.client.get('/api/patient?identifier={}'.format(
json.dumps(ident.as_fhir())),
follow_redirects=True)
self.assert200(rv)
def test_ident_nomatch_search(self):
ident = Identifier(system='http://example.com', value='testy')
ui = UserIdentifier(identifier=ident, user_id=TEST_USER_ID)
with SessionScope(db):
db.session.add(ident)
db.session.add(ui)
db.session.commit()
self.promote_user(role_name=ROLE.PATIENT)
self.login()
ident = db.session.merge(ident)
# modify the system to mis match
id_str = json.dumps(ident.as_fhir()).replace("example.com",
"wrong-system.com")
rv = self.client.get('/api/patient?identifier={}'.format(id_str),
follow_redirects=True)
self.assert404(rv)
def test_site_ids(self):
# bless org w/ expected identifier type
wanted_system = 'http://pcctc.org/'
unwanted_system = 'http://other.org/'
self.app.config['REPORTING_IDENTIFIER_SYSTEMS'] = [wanted_system]
id_value = '146-11'
org = Organization.query.filter(
Organization.name == 'metastatic').one()
id1 = Identifier(
system=wanted_system, use='secondary', value=id_value)
id2 = Identifier(
system=unwanted_system, use='secondary', value=id_value)
org.identifiers.append(id1)
org.identifiers.append(id2)
with SessionScope(db):
db.session.commit()
nineback, nowish = associative_backdate(
now=now, backdate=relativedelta(months=9, hours=1))
self.bless_with_basics(
setdate=nineback, local_metastatic='metastatic')
instrument_id = 'eortc'
mock_qr(instrument_id=instrument_id)
# add staff user w/ same org association for bundle creation
staff = self.add_user(username='******')
staff.organizations.append(Organization.query.filter(
Organization.name == 'metastatic').one())
self.promote_user(staff, role_name=ROLE.STAFF.value)
staff = db.session.merge(staff)
bundle = aggregate_responses(
instrument_ids=[instrument_id], current_user=staff)
id1 = db.session.merge(id1)
assert 1 == len(bundle['entry'])
assert (1 ==
len(bundle['entry'][0]['subject']['careProvider']))
assert (1 ==
len(bundle['entry'][0]['subject']['careProvider'][0]
['identifier']))
assert (id1.as_fhir() ==
bundle['entry'][0]['subject']['careProvider'][0]
['identifier'][0])
def test_site_ids(self):
# bless org w/ expected identifier type
wanted_system = 'http://pcctc.org/'
unwanted_system = 'http://other.org/'
self.app.config['REPORTING_IDENTIFIER_SYSTEMS'] = [wanted_system]
id_value = '146-11'
org = Organization.query.filter(
Organization.name == 'metastatic').one()
id1 = Identifier(
system=wanted_system, use='secondary', value=id_value)
id2 = Identifier(
system=unwanted_system, use='secondary', value=id_value)
org.identifiers.append(id1)
org.identifiers.append(id2)
with SessionScope(db):
db.session.commit()
nineback, nowish = associative_backdate(
now=now, backdate=relativedelta(months=9, hours=1))
self.bless_with_basics(
setdate=nineback, local_metastatic='metastatic')
instrument_id = 'eortc'
mock_qr(instrument_id=instrument_id)
# add staff user w/ same org association for bundle creation
staff = self.add_user(username='******')
staff.organizations.append(Organization.query.filter(
Organization.name == 'metastatic').one())
self.promote_user(staff, role_name=ROLE.STAFF.value)
staff = db.session.merge(staff)
bundle = aggregate_responses(
instrument_ids=[instrument_id], current_user=staff)
id1 = db.session.merge(id1)
assert 1 == len(bundle['entry'])
assert (1 ==
len(bundle['entry'][0]['subject']['careProvider']))
assert (1 ==
len(bundle['entry'][0]['subject']['careProvider'][0]
['identifier']))
assert (id1.as_fhir() ==
bundle['entry'][0]['subject']['careProvider'][0]
['identifier'][0])
def test_ident_search(self):
ident = Identifier(system='http://example.com', value='testy')
ui = UserIdentifier(identifier=ident, user_id=TEST_USER_ID)
with SessionScope(db):
db.session.add(ident)
db.session.add(ui)
db.session.commit()
self.promote_user(role_name=ROLE.PATIENT.value)
self.login()
ident = db.session.merge(ident)
response = self.client.get(
'/api/patient/', follow_redirects=True,
query_string={'identifier': json.dumps(ident.as_fhir()),
'patch_dstu2': True})
assert response.status_code == 200
assert response.json['resourceType'] == 'Bundle'
assert response.json['total'] == 1
assert (
response.json['entry'][0]['resource'] ==
Reference.patient(TEST_USER_ID).as_fhir())
def test_ident_search(self):
ident = Identifier(system='http://example.com', value='testy')
ui = UserIdentifier(identifier=ident, user_id=TEST_USER_ID)
with SessionScope(db):
db.session.add(ident)
db.session.add(ui)
db.session.commit()
self.promote_user(role_name=ROLE.PATIENT.value)
self.login()
ident = db.session.merge(ident)
response = self.client.get('/api/patient/',
follow_redirects=True,
query_string={
'identifier':
json.dumps(ident.as_fhir()),
'patch_dstu2': True
})
assert response.status_code == 200
assert response.json['resourceType'] == 'Bundle'
assert response.json['total'] == 1
assert (response.json['entry'][0]['resource'] == Reference.patient(
TEST_USER_ID).as_fhir())
def test_ident_nomatch_search(self):
ident = Identifier(system='http://example.com', value='testy')
ui = UserIdentifier(identifier=ident, user_id=TEST_USER_ID)
with SessionScope(db):
db.session.add(ident)
db.session.add(ui)
db.session.commit()
self.promote_user(role_name=ROLE.PATIENT.value)
self.login()
ident = db.session.merge(ident)
# modify the system to mis match
id_str = json.dumps(ident.as_fhir()).replace(
"example.com", "wrong-system.com")
response = self.client.get('/api/patient/', query_string={
'identifier': id_str,
'patch_dstu2': True},
follow_redirects=True)
# expect empty bundle
assert response.status_code == 200
assert response.json['resourceType'] == 'Bundle'
assert response.json['total'] == 0
def test_ident_nomatch_search(self):
ident = Identifier(system='http://example.com', value='testy')
ui = UserIdentifier(identifier=ident, user_id=TEST_USER_ID)
with SessionScope(db):
db.session.add(ident)
db.session.add(ui)
db.session.commit()
self.promote_user(role_name=ROLE.PATIENT.value)
self.login()
ident = db.session.merge(ident)
# modify the system to mis match
id_str = json.dumps(ident.as_fhir()).replace("example.com",
"wrong-system.com")
response = self.client.get('/api/patient/',
query_string={
'identifier': id_str,
'patch_dstu2': True
},
follow_redirects=True)
# expect empty bundle
assert response.status_code == 200
assert response.json['resourceType'] == 'Bundle'
assert response.json['total'] == 0