def test_import_job_for_change_in_data(self):
stdout_stub = TestStream()
stderr_stub = TestStream()
mapping = Mapping(parent=self.source1,
map_type='SAME-AS',
from_concept=self.concept3,
to_source=self.source1,
to_concept_code='413532003',
external_id='junk')
kwargs = {
'parent_resource': self.source1,
}
Mapping.persist_new(mapping, self.user1, **kwargs)
source_version = SourceVersion.get_latest_version_of(self.source1)
source_version.mappings = [mapping.id]
source_version.save()
importer = MappingsImporter(self.source1, self.testfile, stdout_stub,
stderr_stub, 'test')
importer.import_mappings(total=1)
self.assertTrue('**** Processed 1 out of 1 mappings - 1 updated, ****'
in stdout_stub.getvalue())
self.assertTrue(('Updated mapping with ID ' +
mapping.id) in stdout_stub.getvalue())
updated_mapping = Mapping.objects.get(to_concept_code='413532003')
self.assertTrue(updated_mapping.retired)
self.assertEquals(updated_mapping.external_id,
'70279ABBBBBBBBBBBBBBBBBBBBBBBBBBBBBB')
def test_import_job_for_change_in_data(self):
stdout_stub = TestStream()
stderr_stub = TestStream()
mapping = Mapping(
parent=self.source1,
map_type='SAME-AS',
from_concept=self.concept3,
to_source=self.source1,
to_concept_code='413532003',
external_id='junk'
)
kwargs = {
'parent_resource': self.source1,
}
Mapping.persist_new(mapping, self.user1, **kwargs)
source_version = SourceVersion.get_latest_version_of(self.source1)
source_version.mappings = [mapping.id]
source_version.save()
importer = MappingsImporter(self.source1, self.testfile, stdout_stub, stderr_stub, 'test')
importer.import_mappings(total=1)
self.assertTrue('mappings of 1 1 - 1 updated' in stdout_stub.getvalue())
self.assertTrue(('Updated mapping with ID ' + mapping.id) in stdout_stub.getvalue())
updated_mapping = Mapping.objects.get(to_concept_code='413532003')
self.assertTrue(updated_mapping.retired)
self.assertEquals(updated_mapping.external_id, '70279ABBBBBBBBBBBBBBBBBBBBBBBBBBBBBB')
def test_import_job_for_change_in_data(self):
stdout_stub = TestStream()
stderr_stub = TestStream()
mapping = Mapping(
parent=self.source1,
map_type="SAME-AS",
from_concept=self.concept3,
to_source=self.source1,
to_concept_code="413532003",
external_id="junk",
)
kwargs = {"parent_resource": self.source1}
Mapping.persist_new(mapping, self.user1, **kwargs)
source_version = SourceVersion.get_latest_version_of(self.source1)
source_version.mappings = [mapping.id]
source_version.save()
importer = MappingsImporter(self.source1, self.testfile, stdout_stub, stderr_stub, "test")
importer.import_mappings(total=1)
self.assertTrue("**** Processed 1 out of 1 mappings - 1 updated, ****" in stdout_stub.getvalue())
self.assertTrue(("Updated mapping with ID " + mapping.id) in stdout_stub.getvalue())
updated_mapping = Mapping.objects.get(to_concept_code="413532003")
self.assertTrue(updated_mapping.retired)
self.assertEquals(updated_mapping.external_id, "70279ABBBBBBBBBBBBBBBBBBBBBBBBBBBBBB")
def test_import_job_for_one_invalid_record(self):
stdout_stub = TestStream()
stderr_stub = TestStream()
invalid_json_file = open('./integration_tests/fixtures/one_invalid_mapping.json', 'rb')
importer = MappingsImporter(self.source1, invalid_json_file, stdout_stub, stderr_stub, 'test')
importer.import_mappings(total=1)
self.assertTrue('Cannot map concept to itself.' in stderr_stub.getvalue())
def test_import_job_for_one_invalid_record(self):
stdout_stub = TestStream()
stderr_stub = TestStream()
invalid_json_file = open(
'./integration_tests/fixtures/one_invalid_mapping.json', 'rb')
importer = MappingsImporter(self.source1, invalid_json_file,
stdout_stub, stderr_stub, 'test')
importer.import_mappings(total=1)
self.assertTrue(
'Cannot map concept to itself.' in stderr_stub.getvalue())
def test_import_valid_invalid_mappings(self):
stdout_stub = TestStream()
stderr_stub = TestStream()
invalid_json_file = open('./integration_tests/fixtures/valid_invalid_mapping.json', 'rb')
importer = MappingsImporter(self.source1, invalid_json_file, stdout_stub, stderr_stub, 'test')
importer.import_mappings(total=5)
self.assertTrue('Cannot map concept to itself.' in stderr_stub.getvalue())
self.assertTrue("Must specify either 'to_concept' or 'to_source' & " in stderr_stub.getvalue())
self.assertEquals(3, Mapping.objects.count())
self.assertEquals(3, MappingVersion.objects.count())
def test_import_job_for_one_record(self):
stdout_stub = TestStream()
stderr_stub = TestStream()
importer = MappingsImporter(self.source1, self.testfile, stdout_stub, stderr_stub, 'test')
importer.import_mappings(total=1)
self.assertTrue('Created new mapping:' in stdout_stub.getvalue())
self.assertTrue('/users/user1/sources/source1/:413532003' in stdout_stub.getvalue())
inserted_mapping = Mapping.objects.get(to_concept_code='413532003')
self.assertEquals(inserted_mapping.to_source, self.source1)
self.assertEquals(inserted_mapping.from_source, self.source2)
mapping_ids = SourceVersion.get_latest_version_of(self.source1).mappings
mapping_version = MappingVersion.objects.get(versioned_object_id=inserted_mapping.id, is_latest_version=True)
self.assertEquals(mapping_ids[0], mapping_version.id)
def test_import_valid_invalid_mappings(self):
stdout_stub = TestStream()
stderr_stub = TestStream()
invalid_json_file = open(
'./integration_tests/fixtures/valid_invalid_mapping.json', 'rb')
importer = MappingsImporter(self.source1, invalid_json_file,
stdout_stub, stderr_stub, 'test')
importer.import_mappings(total=5)
self.assertTrue(
'Cannot map concept to itself.' in stderr_stub.getvalue())
self.assertTrue("Must specify either 'to_concept' or 'to_source' & " in
stderr_stub.getvalue())
self.assertEquals(3, Mapping.objects.count())
self.assertEquals(3, MappingVersion.objects.count())
def test_update_mapping_with_invalid_record(self):
mapping = Mapping(parent=self.source1, map_type="SAME-AS", from_concept=self.concept3, to_concept=self.concept1)
kwargs = {"parent_resource": self.source1}
Mapping.persist_new(mapping, self.user1, **kwargs)
source_version = SourceVersion.get_latest_version_of(self.source1)
source_version.mappings = [mapping.id]
source_version.save()
stderr_stub = TestStream()
invalid_json_file = open("./integration_tests/fixtures/one_internal_invalid_mapping.json", "rb")
importer = MappingsImporter(self.source1, invalid_json_file, TestStream(), stderr_stub, "test")
importer.import_mappings(total=1)
self.assertTrue(
"Must specify either 'to_concept' or 'to_source' & 'to_concept_code'. Cannot specify both."
in stderr_stub.getvalue()
)
def test_import_job_for_one_record(self):
stdout_stub = TestStream()
stderr_stub = TestStream()
importer = MappingsImporter(self.source1, self.testfile, stdout_stub,
stderr_stub, 'test')
importer.import_mappings(total=1)
self.assertTrue('Created new mapping:' in stdout_stub.getvalue())
self.assertTrue('/users/user1/sources/source1/:413532003' in
stdout_stub.getvalue())
inserted_mapping = Mapping.objects.get(to_concept_code='413532003')
self.assertEquals(inserted_mapping.to_source, self.source1)
self.assertEquals(inserted_mapping.from_source, self.source2)
mapping_ids = SourceVersion.get_latest_version_of(
self.source1).get_mapping_ids()
mapping_version = MappingVersion.objects.get(
versioned_object_id=inserted_mapping.id, is_latest_version=True)
self.assertEquals(mapping_ids[0], mapping_version.id)
def test_update_mapping_with_invalid_record(self):
mapping = Mapping(parent=self.source1,
map_type='SAME-AS',
from_concept=self.concept3,
to_concept=self.concept1)
kwargs = {
'parent_resource': self.source1,
}
Mapping.persist_new(mapping, self.user1, **kwargs)
source_version = SourceVersion.get_latest_version_of(self.source1)
source_version.mappings = [mapping.id]
source_version.save()
stderr_stub = TestStream()
invalid_json_file = open(
'./integration_tests/fixtures/one_internal_invalid_mapping.json',
'rb')
importer = MappingsImporter(self.source1, invalid_json_file,
TestStream(), stderr_stub, 'test')
importer.import_mappings(total=1)
self.assertTrue(
"Must specify either 'to_concept' or 'to_source' & 'to_concept_code'. Cannot specify both."
in stderr_stub.getvalue())
def handle(self, *args, **options):
user = User.objects.filter(username='******').get()
org = self.create_organization(user, 'CIEL')
source = self.create_source(user, org, 'CIEL')
demo_file = open('./demo-data/ciel_20180601_concepts_2k.json', 'rb')
importer = ConceptsImporter(source,
demo_file,
user,
OutputWrapper(sys.stdout),
OutputWrapper(sys.stderr),
save_validation_errors=False)
importer.import_concepts(**options)
demo_file = open('./demo-data/ciel_20180601_mappings_2k.json', 'rb')
importer = MappingsImporter(source, demo_file,
OutputWrapper(sys.stdout),
OutputWrapper(sys.stderr), user)
importer.import_mappings(**options)
def handle(self, *args, **options):
user = self.create_admin_user()
version = 'v2019-07-01'
source_version = SourceVersion.objects.filter(mnemonic=version)
if source_version.exists():
return
org = self.create_organization(user, 'CIEL')
source = self.create_source(user, org, 'CIEL')
demo_file = open('./demo-data/ciel_' + version + '_c2k.json', 'rb')
importer = ConceptsImporter(source,
demo_file,
user,
OutputWrapper(sys.stdout),
OutputWrapper(sys.stderr),
save_validation_errors=False)
importer.import_concepts(**options)
demo_file = open('./demo-data/ciel_' + version + '_m2k.json', 'rb')
importer = MappingsImporter(source, demo_file,
OutputWrapper(sys.stdout),
OutputWrapper(sys.stderr), user)
importer.import_mappings(**options)
new_version = SourceVersion.for_base_object(source,
version,
released=True)
SourceVersion.persist_new(new_version,
versioned_object=source,
force_insert=True)
update_children_for_resource_version.delay(new_version.id, 'source')
export_source.delay(new_version.id)
def do_import(self, user, source, input_file, options):
""" Perform the mapping import """
importer = MappingsImporter(source, input_file, self.stdout, self.stderr, user)
importer.import_mappings(**options)