def test_study_get_req_no_access(self): obs = study_get_req(1, '*****@*****.**') exp = { 'status': 'error', 'message': 'User does not have access to study' } self.assertEqual(obs, exp)
def test_study_get_req(self): obs = study_get_req(1, '*****@*****.**') exp = { 'status': 'success', 'study_info': { 'mixs_compliant': True, 'metadata_complete': True, 'level': '', 'reprocess': False, 'owner': '*****@*****.**', 'message': '', 'emp_person_id': 2, 'number_samples_promised': 27, 'funding': None, 'show_biom_download_button': True, 'publication_pid': ['123456', '7891011'], 'vamps_id': None, 'first_contact': datetime(2014, 5, 19, 16, 10), 'ebi_submission_status': 'submitted', 'show_raw_download_button': True, 'timeseries_type_id': 1, 'study_abstract': ('This is a preliminary study to examine the microbiota ' 'associated with the Cannabis plant. Soils samples from ' 'the bulk soil, soil associated with the roots, and the ' 'rhizosphere were extracted and the DNA sequenced. Roots ' 'from three independent plants of different strains were ' 'examined. These roots were obtained November 11, 2011 ' 'from plants that had been harvested in the summer. ' 'Future studies will attempt to analyze the soils and ' 'rhizospheres from the same location at different time ' 'points in the plant lifecycle.'), 'status': 'private', 'spatial_series': False, 'specimen_id_column': None, 'study_description': ('Analysis of the Cannabis Plant Microbiome'), 'shared_with': ['*****@*****.**'], 'publication_doi': ['10.100/123456', '10.100/7891011'], 'has_access_to_raw_data': True, 'lab_person': { 'affiliation': 'knight lab', 'name': 'LabDude', 'email': '*****@*****.**' }, 'principal_investigator': { 'affiliation': 'Wash U', 'name': 'PIDude', 'email': '*****@*****.**' }, 'study_alias': 'Cannabis Soils', 'study_id': 1, 'most_recent_contact': datetime(2014, 5, 19, 16, 11), 'ebi_study_accession': 'EBI123456-BB', 'num_samples': 27, 'study_title': ('Identification of the Microbiomes for Cannabis Soils'), 'number_samples_collected': 27 }, 'message': '', 'editable': True } self.assertEqual(obs, exp) # Test with no lab person info = { "timeseries_type_id": 1, "metadata_complete": True, "mixs_compliant": True, "number_samples_collected": 25, "number_samples_promised": 28, "study_alias": "FCM", "study_description": "DESC", "study_abstract": "ABS", "principal_investigator_id": qdb.study.StudyPerson(3), 'first_contact': datetime(2015, 5, 19, 16, 10), 'most_recent_contact': datetime(2015, 5, 19, 16, 11), } new_study = qdb.study.Study.create(qdb.user.User('*****@*****.**'), "Some New Study for test", info) obs = study_get_req(new_study.id, '*****@*****.**') exp = { 'status': 'success', 'message': '', 'study_info': { 'mixs_compliant': True, 'metadata_complete': True, 'reprocess': False, 'emp_person_id': None, 'number_samples_promised': 28, 'funding': None, 'vamps_id': None, 'first_contact': datetime(2015, 5, 19, 16, 10), 'timeseries_type_id': 1, 'study_abstract': 'ABS', 'status': 'private', 'spatial_series': False, 'study_description': 'DESC', 'shared_with': [], 'lab_person': None, 'study_alias': "FCM", 'owner': 'Dude', 'principal_investigator': { 'affiliation': 'Wash U', 'name': 'PIDude', 'email': '*****@*****.**' }, 'study_alias': 'FCM', 'study_id': new_study.id, 'most_recent_contact': datetime(2015, 5, 19, 16, 11), 'publication_doi': [], 'publication_pid': [], 'num_samples': 25, 'study_title': 'Some New Study', 'number_samples_collected': 27 }, 'editable': True } self.assertItemsEqual(obs, exp)
def test_study_get_req_no_exists(self): obs = study_get_req(4000, '*****@*****.**') exp = {'status': 'error', 'message': 'Study does not exist'} self.assertEqual(obs, exp)
def test_study_get_req(self): obs = study_get_req(1, '*****@*****.**') exp = { 'status': 'success', 'study_info': { 'mixs_compliant': True, 'metadata_complete': True, 'level': '', 'reprocess': False, 'owner': '*****@*****.**', 'message': '', 'emp_person_id': 2, 'number_samples_promised': 27, 'funding': None, 'show_biom_download_button': True, 'publication_pid': ['123456', '7891011'], 'vamps_id': None, 'first_contact': datetime(2014, 5, 19, 16, 10), 'ebi_submission_status': 'submitted', 'show_raw_download_button': True, 'timeseries_type_id': 1, 'study_abstract': ( 'This is a preliminary study to examine the microbiota ' 'associated with the Cannabis plant. Soils samples from ' 'the bulk soil, soil associated with the roots, and the ' 'rhizosphere were extracted and the DNA sequenced. Roots ' 'from three independent plants of different strains were ' 'examined. These roots were obtained November 11, 2011 ' 'from plants that had been harvested in the summer. ' 'Future studies will attempt to analyze the soils and ' 'rhizospheres from the same location at different time ' 'points in the plant lifecycle.'), 'status': 'private', 'spatial_series': False, 'study_description': ( 'Analysis of the Cannabis Plant Microbiome'), 'shared_with': ['*****@*****.**'], 'publication_doi': [ '10.100/123456', '10.100/7891011'], 'has_access_to_raw_data': True, 'lab_person': { 'affiliation': 'knight lab', 'name': 'LabDude', 'email': '*****@*****.**'}, 'principal_investigator': { 'affiliation': 'Wash U', 'name': 'PIDude', 'email': '*****@*****.**'}, 'study_alias': 'Cannabis Soils', 'study_id': 1, 'most_recent_contact': datetime(2014, 5, 19, 16, 11), 'ebi_study_accession': 'EBI123456-BB', 'num_samples': 27, 'study_title': ( 'Identification of the Microbiomes for Cannabis Soils'), 'number_samples_collected': 27}, 'message': '', 'editable': True} self.assertEqual(obs, exp) # Test with no lab person info = { "timeseries_type_id": 1, "metadata_complete": True, "mixs_compliant": True, "number_samples_collected": 25, "number_samples_promised": 28, "study_alias": "FCM", "study_description": "DESC", "study_abstract": "ABS", "principal_investigator_id": qdb.study.StudyPerson(3), 'first_contact': datetime(2015, 5, 19, 16, 10), 'most_recent_contact': datetime(2015, 5, 19, 16, 11), } new_study = qdb.study.Study.create( qdb.user.User('*****@*****.**'), "Some New Study for test", info) obs = study_get_req(new_study.id, '*****@*****.**') exp = { 'status': 'success', 'message': '', 'study_info': { 'mixs_compliant': True, 'metadata_complete': True, 'reprocess': False, 'emp_person_id': None, 'number_samples_promised': 28, 'funding': None, 'vamps_id': None, 'first_contact': datetime(2015, 5, 19, 16, 10), 'timeseries_type_id': 1, 'study_abstract': 'ABS', 'status': 'private', 'spatial_series': False, 'study_description': 'DESC', 'shared_with': [], 'lab_person': None, 'study_alias': "FCM", 'owner': 'Dude', 'principal_investigator': {'affiliation': 'Wash U', 'name': 'PIDude', 'email': '*****@*****.**'}, 'study_alias': 'FCM', 'study_id': new_study.id, 'most_recent_contact': datetime(2015, 5, 19, 16, 11), 'publication_doi': [], 'publication_pid': [], 'num_samples': 25, 'study_title': 'Some New Study', 'number_samples_collected': 27}, 'editable': True} self.assertItemsEqual(obs, exp)
def test_study_get_req_no_exists(self): obs = study_get_req(4000, '*****@*****.**') exp = {'status': 'error', 'message': 'Study does not exist'} self.assertEqual(obs, exp)
def test_study_get_req_no_access(self): obs = study_get_req(1, '*****@*****.**') exp = {'status': 'error', 'message': 'User does not have access to study'} self.assertEqual(obs, exp)