def test_import_submission(celery_session_worker, partners, gdpr_roles,
can_defer_constraint_checks):
VIP = factories.VIPGroup()
reinhard = factories.UserFactory.create(first_name='Rene',
last_name='Sahoo',
groups=[VIP])
factories.UserFactory.create(first_name='Elgin',
last_name='Gray',
groups=[VIP])
factories.UserFactory.create(first_name='Rob',
last_name='Blue',
groups=[VIP])
elixir_project = factories.ProjectFactory.create(
acronym='ELIXIR', title='ELIXIR', local_custodians=[reinhard])
dataset_json = os.path.join(TEST_DATA_PATH, "ELX_LU_SUB-1.json")
with open(dataset_json, "r") as file_with_dataset:
importer = DishSubmissionImporter(elixir_project.title)
importer.import_json(file_with_dataset.read(), True, True)
assert 1 == Dataset.objects.all().count()
# assert 2 == Project.objects.all().count()
dataset = Dataset.objects.first()
assert 'ELX_LU_SUB-1' == dataset.title
# assert 2 == dataset.data_declarations.all().count()
# TODO finalise Submission importer once elixir-dcp i.e. DISH goes into production.
# Mapping from DISH to DAISY not yet complete...
assert 'ELIXIR' == dataset.project.title
assert 2 == dataset.local_custodians.all().count()
assert ["Elgin Gray", "Rob Blue"] == [
custodian.full_name for custodian in dataset.local_custodians.all()
]
def test_export_datasets(celery_session_worker, contact_types, partners,
gdpr_roles, storage_resources,
can_defer_constraint_checks):
VIP = factories.VIPGroup()
rebecca = factories.UserFactory.create(first_name='Rebecca',
last_name='Kafe',
groups=[VIP])
embury = factories.UserFactory.create(first_name='Embury',
last_name='Bask')
a_project = factories.ProjectFactory.create(
acronym='Test_PRJ',
title='Title of test project.',
local_custodians=[rebecca, embury])
a_dataset = factories.DatasetFactory.create(
title='A test dataset',
project=a_project,
local_custodians=[rebecca, embury])
exp = DatasetsExporter()
buffer = exp.export_to_buffer(StringIO())
dict = json.loads(buffer.getvalue())
dataset_dicts = dict['items']
assert 1 == len(dataset_dicts)
assert "A test dataset" == dataset_dicts[0]['name']
assert "Test_PRJ" == dataset_dicts[0]['project']
def test_import_datasets(celery_session_worker, storage_resources, partners,
gdpr_roles, can_defer_constraint_checks):
VIP = factories.VIPGroup()
factories.UserFactory.create(first_name='Igor',
last_name='Teal',
groups=[VIP])
factories.UserFactory.create(first_name='Joanne',
last_name='Swift',
groups=[VIP])
factories.UserFactory.create(first_name='Elgin',
last_name='Gray',
groups=[VIP])
factories.UserFactory.create(first_name='Paul',
last_name='Mauve',
groups=[VIP])
factories.UserFactory.create(first_name='Rob',
last_name='Blue',
groups=[VIP])
factories.UserFactory.create(first_name='Ali',
last_name='Gator',
groups=[VIP])
data_file = os.path.join(os.path.dirname(os.path.realpath(__file__)),
"../data/datasets.json")
with open(data_file, "r") as f:
importer = DatasetsImporter()
importer.import_json(f.read(), True)
assert 5 == Dataset.objects.all().count()
assert 4 == Project.objects.all().count()
d1 = Dataset.objects.filter(title='ABCD data').first()
assert ["Igor Teal"] == [
custodian.full_name for custodian in d1.local_custodians.all()
]
assert 1 == d1.data_locations.all().count()
shares = d1.shares.all()
share1 = shares[0]
assert 1 == shares.count()
d2 = Dataset.objects.filter(title='Hypertension data').first()
assert ["Joanne Swift"] == [
employee.full_name for employee in d2.local_custodians.all()
]
assert "Hypertension" == d2.project.acronym
assert 1 == d2.data_locations.all().count()
d3 = Dataset.objects.filter(title='MDPDP data').first()
assert ["Rob Blue"] == [
employee.full_name for employee in d3.local_custodians.all()
]
assert 2 == d3.data_locations.all().count()
d4 = Dataset.objects.filter(title='PD data').first()
assert ["Ali Gator"] == [
employee.full_name for employee in d4.local_custodians.all()
]
assert 7 == d4.data_locations.all().count()
def test_import_projects(celery_session_worker, contact_types, partners):
VIP = factories.VIPGroup()
factories.UserFactory.create(first_name='Julia',
last_name='Crayon',
groups=[VIP])
factories.UserFactory.create(first_name='Rebecca',
last_name='Kafe',
groups=[VIP])
factories.UserFactory.create(first_name='Embury', last_name='Bask')
factories.UserFactory.create(first_name='Colman',
last_name='Level',
groups=[VIP])
factories.UserFactory.create(first_name='Nic',
last_name='Purple',
groups=[VIP])
factories.UserFactory.create(first_name='James', last_name='BK')
projects_json = os.path.join(os.path.dirname(os.path.realpath(__file__)),
"../data/projects.json")
importer = ProjectsImporter()
importer.import_json_file(projects_json, True)
projects = Project.objects.all()
assert 2 == projects.count()
project1 = Project.objects.filter(
acronym='In vitro disease modeling').first()
assert ["Joanne Swift", "Rebecca Kafe"] == [
custodian.full_name for custodian in project1.local_custodians.all()
]
assert 1 == project1.company_personnel.count()
assert False == project1.has_cner
assert True == project1.has_erp
assert ["Embury Bask"] == [
employee.full_name for employee in project1.company_personnel.all()
]
assert "test notes 123" == project1.erp_notes
assert 2 == project1.publications.count()
project2 = Project.objects.filter(acronym='CCCC deficiency').first()
assert ["Colman Level"] == [
custodian.full_name for custodian in project2.local_custodians.all()
]
assert 3 == project2.company_personnel.count()
assert 1 == project2.publications.count()
#2016-11-01
assert 2016 == project2.start_date.year
assert 11 == project2.start_date.month
assert 1 == project2.start_date.day
assert 1 == project2.publications.count()
def test_import_datadecs(celery_session_worker, contact_types, partners,
gdpr_roles, storage_resources,
can_defer_constraint_checks):
VIP = factories.VIPGroup()
factories.UserFactory.create(first_name='Igor',
last_name='Teal',
groups=[VIP])
factories.UserFactory.create(first_name='Joanne',
last_name='Swift',
groups=[VIP])
factories.UserFactory.create(first_name='Elgin',
last_name='Gray',
groups=[VIP])
factories.UserFactory.create(first_name='Paul',
last_name='Mauve',
groups=[VIP])
factories.UserFactory.create(first_name='Rene',
last_name='Sahoo',
groups=[VIP])
factories.UserFactory.create(first_name='Rob',
last_name='Blue',
groups=[VIP])
dataset_file = os.path.join(os.path.dirname(os.path.realpath(__file__)),
"../data/datasets.json")
with open(dataset_file, "r") as f:
importer = DatasetsImporter()
importer.import_json(f.read(), True)
datadec_file = os.path.join(os.path.dirname(os.path.realpath(__file__)),
"../data/datadecs.json")
with open(datadec_file, "r") as f:
importer = DatadecsImporter()
importer.import_json(f.read(), True)
dsets = Dataset.objects.all()
assert 5 == dsets.count()
ddecs = DataDeclaration.objects.all()
HyperData = ddecs[1]
assert 'Hypertension-ABC disease' == HyperData.title
contract = HyperData.contract
first_partner_role = contract.partners_roles.first()
assert first_partner_role.contacts.count() > 0
assert "Alberto" == first_partner_role.contacts.first().first_name
assert "Pico" == first_partner_role.contacts.first().last_name
assert "Hypertension" == contract.project.acronym
assert "ELU_I_94" == first_partner_role.partner.elu_accession
def test_export_projects(celery_session_worker, contact_types, partners, gdpr_roles, storage_resources, can_defer_constraint_checks):
VIP = factories.VIPGroup()
rebecca = factories.UserFactory.create(first_name='Rebecca', last_name='Kafe', groups=[VIP])
embury = factories.UserFactory.create(first_name='Embury', last_name='Bask')
a_project = factories.ProjectFactory.create(acronym='Test_PRJ', title='Title of test project.', local_custodians=[rebecca, embury])
another_project = factories.ProjectFactory.create(acronym='Another PRJ', title='Title of another test project.', local_custodians=[rebecca, embury])
exp = ProjectsExporter()
buffer = exp.export_to_buffer(StringIO())
dict = json.loads(buffer.getvalue())
project_dicts = dict['items']
assert 2 == len(project_dicts)
assert "Title of test project." == project_dicts[0]['name']
assert 2 == len(project_dicts[0]['contacts'])
#TODO add check of more fields
schema = ProjectJSONSchemaValidator()
assert schema.validate_items(project_dicts)
def test_import_datasets(celery_session_worker, storage_resources,
contact_types, data_types, partners, gdpr_roles,
can_defer_constraint_checks):
VIP = factories.VIPGroup()
factories.UserFactory.create(first_name='Igor',
last_name='Teal',
groups=[VIP],
email="*****@*****.**")
factories.UserFactory.create(first_name='Joanne',
last_name='Swift',
groups=[VIP],
email="*****@*****.**")
factories.UserFactory.create(first_name='Elgin',
last_name='Gray',
groups=[VIP],
email="*****@*****.**")
factories.UserFactory.create(first_name='Paul',
last_name='Mauve',
groups=[VIP],
email="*****@*****.**")
factories.UserFactory.create(first_name='Rob',
last_name='Blue',
groups=[VIP],
email="*****@*****.**")
factories.UserFactory.create(first_name='Ali',
last_name='Gator',
groups=[VIP],
email="*****@*****.**")
data_file = os.path.join(os.path.dirname(os.path.realpath(__file__)),
"../data/datasets.json")
importer = DatasetsImporter()
importer.import_json_file(data_file, True)
assert 5 == Dataset.objects.all().count()
assert 4 == Project.objects.all().count()
d1 = Dataset.objects.filter(title='ABCD data').first()
assert ["Igor Teal"] == [
custodian.full_name for custodian in d1.local_custodians.all()
]
assert 1 == d1.data_locations.all().count()
shares = d1.shares.all()
share1 = shares[0]
assert 1 == shares.count()
d2 = Dataset.objects.filter(title='Hypertension data').first()
assert ["Joanne Swift"] == [
employee.full_name for employee in d2.local_custodians.all()
]
assert "Hypertension" == d2.project.acronym
assert 1 == d2.data_locations.all().count()
d3 = Dataset.objects.filter(title='MDPDP data').first()
assert ["Rob Blue"] == [
employee.full_name for employee in d3.local_custodians.all()
]
assert 2 == d3.data_locations.all().count()
d4 = Dataset.objects.filter(title='PD data').first()
assert ["Ali Gator"] == [
employee.full_name for employee in d4.local_custodians.all()
]
assert 7 == d4.data_locations.all().count()
ddecs = DataDeclaration.objects.all()
assert 5 == ddecs.count()
ddec = DataDeclaration.objects.get(title='XYZ')
assert "2030-05-10" == ddec.end_of_storage_duration.strftime("%Y-%m-%d")