def test_multiple_rps_in_fhir(self): yesterday = datetime.utcnow() - timedelta(days=1) lastyear = datetime.utcnow() - timedelta(days=365) org = Organization(name='Testy') rp1 = ResearchProtocol(name='rp1') rp2 = ResearchProtocol(name='yesterday') rp3 = ResearchProtocol(name='last year') with SessionScope(db): map(db.session.add, (org, rp1, rp2, rp3)) db.session.commit() org, rp1, rp2, rp3 = map(db.session.merge, (org, rp1, rp2, rp3)) o_rp1 = OrganizationResearchProtocol( research_protocol=rp1, organization=org) o_rp2 = OrganizationResearchProtocol( research_protocol=rp2, organization=org, retired_as_of=yesterday) o_rp3 = OrganizationResearchProtocol( research_protocol=rp3, organization=org, retired_as_of=lastyear) with SessionScope(db): map(db.session.add, (o_rp1, o_rp2, o_rp3)) db.session.commit() org, rp1, rp2, rp3 = map(db.session.merge, (org, rp1, rp2, rp3)) data = org.as_fhir() assert org.name == data['name'] rps = [ extension for extension in data['extension'] if extension['url'] == ResearchProtocolExtension.extension_url] assert len(rps) == 1 assert len(rps[0]['research_protocols']) == 3 # confirm the order is descending in the custom accessor method results = [(rp, retired) for rp, retired in org.rps_w_retired()] assert [(rp1, None), (rp2, yesterday), (rp3, lastyear)] == results
def test_organization_extension_update(self): # confirm clearing one of several extensions works self.promote_user(role_name=ROLE.ADMIN.value) self.login() en_AU = LocaleConstants().AustralianEnglish # Populate db with complete org, and set many fields org = Organization(name='test', phone='800-800-5665', timezone='US/Pacific') org.identifiers.append( Identifier(value='state:NY', system=PRACTICE_REGION)) org.locales.append(en_AU) org.default_locale = 'en_AU' rp = ResearchProtocol(name='rp1') with SessionScope(db): db.session.add(rp) db.session.add(org) db.session.commit() org, rp = map(db.session.merge, (org, rp)) org_id, rp_id = org.id, rp.id org.research_protocols.append(rp) data = org.as_fhir() input = { k: v for k, v in data.items() if k in ('name', 'resourceType') } # Replace locale extension with null value, copy # over others. input['extension'] = [ e for e in data['extension'] if e['url'] != LocaleExtension.extension_url ] input['extension'].append({'url': LocaleExtension.extension_url}) response = self.client.put('/api/organization/{}'.format(org_id), content_type='application/json', data=json.dumps(input)) assert response.status_code == 200 # Pull the updated db entry org = Organization.query.get(org_id) en_AU = db.session.merge(en_AU) # Confirm all the unmentioned entries survived assert org.phone == '800-800-5665' assert org.default_locale == 'en_AU' assert org.locales.count() == 0 assert org.timezone == 'US/Pacific' assert org.research_protocol(as_of_date=datetime.utcnow()).id == rp_id # Confirm empty extension isn't included in result results = response.json for e in results['extension']: assert 'url' in e assert len(e.keys()) > 1
def test_as_fhir(self): org = Organization(name='Homer\'s Hospital') org.use_specific_codings = True org.race_codings = False data = org.as_fhir() assert org.name == data['name'] assert data['use_specific_codings'] assert not data['race_codings']
def test_as_fhir(self): org = Organization(name='Homer\'s Hospital') org.use_specific_codings = True org.race_codings = False data = org.as_fhir() self.assertEquals(org.name, data['name']) self.assertTrue(data['use_specific_codings']) self.assertFalse(data['race_codings'])
def test_as_fhir(self): org = Organization(name='Homer\'s Hospital') org.use_specific_codings = True org.race_codings = False data = org.as_fhir() assert org.name == data['name'] assert data['use_specific_codings'] assert not data['race_codings']
def test_organization_extension_update(self): # confirm clearing one of several extensions works self.promote_user(role_name=ROLE.ADMIN.value) self.login() en_AU = LocaleConstants().AustralianEnglish # Populate db with complete org, and set many fields org = Organization( name='test', phone='800-800-5665', timezone='US/Pacific') org.identifiers.append(Identifier( value='state:NY', system=PRACTICE_REGION)) org.locales.append(en_AU) org.default_locale = 'en_AU' rp = ResearchProtocol(name='rp1') with SessionScope(db): db.session.add(rp) db.session.add(org) db.session.commit() org, rp = map(db.session.merge, (org, rp)) org_id, rp_id = org.id, rp.id org.research_protocols.append(rp) data = org.as_fhir() input = {k: v for k, v in data.items() if k in ( 'name', 'resourceType')} # Replace locale extension with null value, copy # over others. input['extension'] = [ e for e in data['extension'] if e['url'] != LocaleExtension.extension_url] input['extension'].append({'url': LocaleExtension.extension_url}) response = self.client.put( '/api/organization/{}'.format(org_id), content_type='application/json', data=json.dumps(input)) assert response.status_code == 200 # Pull the updated db entry org = Organization.query.get(org_id) en_AU = db.session.merge(en_AU) # Confirm all the unmentioned entries survived assert org.phone == '800-800-5665' assert org.default_locale == 'en_AU' assert org.locales.count() == 0 assert org.timezone == 'US/Pacific' assert org.research_protocol(as_of_date=datetime.utcnow()).id == rp_id # Confirm empty extension isn't included in result results = response.json for e in results['extension']: assert 'url' in e assert len(e.keys()) > 1
def test_delete_extension(self): org = Organization(name='testy') org.timezone = 'Asia/Tokyo' # stored in an extension with SessionScope(db): db.session.add(org) db.session.commit() org = db.session.merge(org) mp = ModelPersistence( Organization, lookup_field='id', sequence_name='organizations_id_seq', target_dir=self.tmpdir) mp.export() # Strip the empty extensions, as expected in the real persistence file with open( os.path.join(self.tmpdir, 'Organization.json'), 'r') as pfile: data = json.load(pfile) # Special handling of extensions - empties only have 'url' key for i, entry in enumerate(data['entry']): extensions = entry['extension'] keepers = [] for e in extensions: if len(e.keys()) > 1: keepers.append(e) data['entry'][i]['extension'] = keepers empty_keys = [k for k, v in entry.items() if not v] for k in empty_keys: del data['entry'][i][k] with open( os.path.join(self.tmpdir, 'Organization.json'), 'w') as pfile: pfile.write(json.dumps(data)) # Add an additional extension to the org, make sure # they are deleted when importing again from # persistence that doesn't include them org.locales.append(LocaleConstants().AmericanEnglish) with SessionScope(db): db.session.commit() org = db.session.merge(org) assert len(org.as_fhir()['extension']) > 1 mp.import_(keep_unmentioned=False) org = Organization.query.filter(Organization.name == 'testy').one() assert org.locales.count() == 0 assert org.timezone == 'Asia/Tokyo'
def test_organization_put_update(self): # confirm unmentioned fields persist self.promote_user(role_name=ROLE.ADMIN.value) self.login() en_AU = LocaleConstants().AustralianEnglish # Populate db with complet org, and set many fields org = Organization(name='test', phone='800-800-5665', timezone='US/Pacific') org.identifiers.append( Identifier(value='state:NY', system=PRACTICE_REGION)) org.locales.append(en_AU) org.default_locale = 'en_AU' with SessionScope(db): db.session.add(org) db.session.commit() org = db.session.merge(org) org_id = org.id data = org.as_fhir() # Now strip down the representation - confirm a post doesn't # wipe unmentioned fields del data['extension'] del data['telecom'] del data['language'] response = self.client.put('/api/organization/{}'.format(org_id), content_type='application/json', data=json.dumps(data)) assert response.status_code == 200 # Pull the updated db entry org = Organization.query.get(org_id) en_AU = db.session.merge(en_AU) # Confirm all the unmentioned entries survived assert org.phone == '800-800-5665' assert org.default_locale == 'en_AU' assert org.locales[0] == en_AU assert org.timezone == 'US/Pacific'
def test_organization_put_update(self): # confirm unmentioned fields persist self.promote_user(role_name=ROLE.ADMIN.value) self.login() en_AU = LocaleConstants().AustralianEnglish # Populate db with complet org, and set many fields org = Organization( name='test', phone='800-800-5665', timezone='US/Pacific') org.identifiers.append(Identifier( value='state:NY', system=PRACTICE_REGION)) org.locales.append(en_AU) org.default_locale = 'en_AU' with SessionScope(db): db.session.add(org) db.session.commit() org = db.session.merge(org) org_id = org.id data = org.as_fhir() # Now strip down the representation - confirm a post doesn't # wipe unmentioned fields del data['extension'] del data['telecom'] del data['language'] response = self.client.put( '/api/organization/{}'.format(org_id), content_type='application/json', data=json.dumps(data)) assert response.status_code == 200 # Pull the updated db entry org = Organization.query.get(org_id) en_AU = db.session.merge(en_AU) # Confirm all the unmentioned entries survived assert org.phone == '800-800-5665' assert org.default_locale == 'en_AU' assert org.locales[0] == en_AU assert org.timezone == 'US/Pacific'
def test_multiple_rps_in_fhir(self): yesterday = datetime.utcnow() - timedelta(days=1) lastyear = datetime.utcnow() - timedelta(days=365) org = Organization(name='Testy') rp1 = ResearchProtocol(name='rp1') rp2 = ResearchProtocol(name='yesterday') rp3 = ResearchProtocol(name='last year') with SessionScope(db): map(db.session.add, (org, rp1, rp2, rp3)) db.session.commit() org, rp1, rp2, rp3 = map(db.session.merge, (org, rp1, rp2, rp3)) o_rp1 = OrganizationResearchProtocol(research_protocol=rp1, organization=org) o_rp2 = OrganizationResearchProtocol(research_protocol=rp2, organization=org, retired_as_of=yesterday) o_rp3 = OrganizationResearchProtocol(research_protocol=rp3, organization=org, retired_as_of=lastyear) with SessionScope(db): map(db.session.add, (o_rp1, o_rp2, o_rp3)) db.session.commit() org, rp1, rp2, rp3 = map(db.session.merge, (org, rp1, rp2, rp3)) data = org.as_fhir() assert org.name == data['name'] rps = [ extension for extension in data['extension'] if extension['url'] == ResearchProtocolExtension.extension_url ] assert len(rps) == 1 assert len(rps[0]['research_protocols']) == 3 # confirm the order is descending in the custom accessor method results = [(rp, retired) for rp, retired in org.rps_w_retired()] assert [(rp1, None), (rp2, yesterday), (rp3, lastyear)] == results