def test_data_file_update_url_different_file_not_indexed(
create_alias, create_index, get_index_uuid, get_index_hash, client,
pg_driver, admin, submitter, cgci_blgsp):
"""
Test submitting the different data (with NO id provided) and updating the
URL field.
HOWEVER the file hash and size in the new data do NOT match the previously
submitted data. The file hash/size provided does NOT
match an already indexed file. e.g. The file is not yet indexed.
The asssumption is that the user is attempting to UPDATE the index
with a new file but didn't provide a full id, just the same submitter_id
as before.
Without an ID provided, sheepdog falls back on secondary keys (being
the submitter_id/project). There is already a match for that, BUT
the provided file hash/size is different than the previously submitted one.
"""
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
document = MagicMock()
document.did = DEFAULT_UUID
document.urls = [DEFAULT_URL]
get_index_uuid.return_value = document
# index yeilds no match given hash/size
get_index_hash.return_value = None
resp = submit_metadata_file(client, pg_driver, admin, submitter,
cgci_blgsp)
entity = assert_single_entity_from_response(resp)
# now submit again but change url
new_url = 'some/new/url/location/to/add'
updated_file = copy.deepcopy(DEFAULT_METADATA_FILE)
updated_file['urls'] = new_url
updated_file['object_id'] = DEFAULT_UUID
updated_file['md5sum'] = DEFAULT_FILE_HASH.replace('0', '2')
updated_file['file_size'] = DEFAULT_FILE_SIZE + 1
resp = submit_metadata_file(client,
pg_driver,
admin,
submitter,
cgci_blgsp,
data=updated_file)
# no index or alias creation
assert not create_index.called
assert not create_alias.called
# make sure original url is still there and new url is NOT
assert DEFAULT_URL in document.urls
assert new_url not in document.urls
# response
assert_negative_response(resp)
assert_single_entity_from_response(resp)
def test_data_file_already_indexed_id_provided(
create_alias,
create_index,
get_index_uuid,
get_index_hash,
client,
pg_driver,
admin,
submitter,
cgci_blgsp,
monkeypatch,
):
"""
Test submitting when the file is already indexed in the index client and
an id is provided in the submission.
NOTE: signpostclient will NOT create add a file to the index service if an ID
is provided
"""
monkeypatch.setitem(flask.current_app.config, "USE_SIGNPOST", True)
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
document = MagicMock()
document.did = "14fd1746-61bb-401a-96d2-342cfaf70000"
get_index_uuid.return_value = document
# signpostclient cannot find by hash/size
get_index_hash.return_value = None
# signpost create will return a document
create_index.return_value = document
# only return the correct document by uuid IF the uuid provided is
# the one from above
def get_index_by_uuid(uuid):
if uuid == document.did:
return document
else:
return None
get_index_uuid.side_effect = get_index_by_uuid
file = copy.deepcopy(DEFAULT_METADATA_FILE)
file["id"] = document.did
resp = submit_metadata_file(
client, pg_driver, admin, submitter, cgci_blgsp, data=file
)
# no index or alias creation
assert not create_index.called
assert not create_alias.called
# no support for aliases
assert not create_alias.called
# response
assert_negative_response(resp)
assert_single_entity_from_response(resp)
def test_data_file_update_url_id_provided_different_file_already_indexed(
create_alias, create_index, get_index_uuid, get_index_hash, client,
pg_driver, admin, submitter, cgci_blgsp):
"""
Test submitting the same data again (with the id provided) and updating the
URL field (should get added to the indexed file in index service).
HOWEVER the file hash and size in the new data MATCH A DIFFERENT
FILE in the index service that does NOT have the id provided.
The asssumption is that the user is attempting to UPDATE the index
with a new file they've already submitted under a different id.
FIXME At the moment, we do not allow updating like this
"""
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
document_with_id = MagicMock()
document_with_id.did = DEFAULT_UUID
document_with_id.urls = [DEFAULT_URL]
different_file_matching_hash_and_size = MagicMock()
different_file_matching_hash_and_size.did = '14fd1746-61bb-401a-96d2-342cfaf70000'
different_file_matching_hash_and_size.urls = [DEFAULT_URL]
get_index_uuid.return_value = document_with_id
get_index_hash.return_value = different_file_matching_hash_and_size
submit_metadata_file(client, pg_driver, admin, submitter, cgci_blgsp)
# now submit again but change url
new_url = 'some/new/url/location/to/add'
updated_file = copy.deepcopy(DEFAULT_METADATA_FILE)
updated_file['urls'] = new_url
updated_file['id'] = DEFAULT_UUID
updated_file['md5sum'] = DEFAULT_FILE_HASH.replace('0', '2')
updated_file['file_size'] = DEFAULT_FILE_SIZE + 1
resp = submit_metadata_file(client,
pg_driver,
admin,
submitter,
cgci_blgsp,
data=updated_file)
# no index or alias creation
assert not create_index.called
assert not create_alias.called
# make sure original url is still there and new url is NOT
assert DEFAULT_URL in document_with_id.urls
assert DEFAULT_URL in different_file_matching_hash_and_size.urls
assert new_url not in document_with_id.urls
assert new_url not in different_file_matching_hash_and_size.urls
# response
assert_negative_response(resp)
assert_single_entity_from_response(resp)
def test_data_file_update_url_invalid_id(
create_alias,
create_index,
get_index_uuid,
get_index_hash,
client,
pg_driver,
admin,
submitter,
cgci_blgsp,
):
"""
Test submitting the same data again (with the WRONG id provided).
i.e. ID provided doesn't match the id from the index service for the file
found with the hash/size provided
FIXME: the 1:1 between node id and index/file id is temporary so this
test may need to be modified in the future
"""
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
document = MagicMock()
document.did = "14fd1746-61bb-401a-96d2-342cfaf70000"
document.urls = [DEFAULT_URL]
get_index_hash.return_value = document
# the uuid provided doesn't have a matching indexed file
get_index_uuid.return_value = None
submit_metadata_file(client, pg_driver, admin, submitter, cgci_blgsp)
# now submit again but change url
new_url = "some/new/url/location/to/add"
updated_file = copy.deepcopy(DEFAULT_METADATA_FILE)
updated_file["urls"] = new_url
updated_file["id"] = DEFAULT_UUID
resp = submit_metadata_file(client,
pg_driver,
admin,
submitter,
cgci_blgsp,
data=updated_file)
# no index or alias creation
assert not create_index.called
assert not create_alias.called
# make sure original url is still there and new url is NOT
assert DEFAULT_URL in document.urls
assert new_url not in document.urls
# response
assert_negative_response(resp)
assert_single_entity_from_response(resp)
def test_data_file_update_url_id_provided_different_file_not_indexed(
create_alias, create_index, get_index_uuid, get_index_hash, client,
pg_driver, admin, submitter, cgci_blgsp):
"""
Test submitting the same data again (with the id provided) and updating the
URL field.
HOWEVER the file hash and size in the new data do NOT match the previously
submitted data for the given ID. The file hash/size provided does NOT
match an already indexed file. e.g. The file is not yet indexed.
The asssumption is that the user is attempting to UPDATE the index
with a new file.
FIXME At the moment, we do not allow updating like this
"""
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
document = MagicMock()
document.did = DEFAULT_UUID
document.urls = [DEFAULT_URL]
get_index_uuid.return_value = document
# index yeilds no match given hash/size
get_index_hash.return_value = None
submit_metadata_file(client, pg_driver, admin, submitter, cgci_blgsp)
# now submit again but change url
new_url = 'some/new/url/location/to/add'
updated_file = copy.deepcopy(DEFAULT_METADATA_FILE)
updated_file['urls'] = new_url
updated_file['id'] = DEFAULT_UUID
updated_file['md5sum'] = DEFAULT_FILE_HASH.replace('0', '2')
updated_file['file_size'] = DEFAULT_FILE_SIZE + 1
resp = submit_metadata_file(client,
pg_driver,
admin,
submitter,
cgci_blgsp,
data=updated_file)
# no index or alias creation
assert not create_index.called
assert not create_alias.called
# make sure original url is still there and new url is NOT
assert DEFAULT_URL in document.urls
assert new_url not in document.urls
# response
assert_negative_response(resp)
assert_single_entity_from_response(resp)
def test_create_file_no_required_index(
create_alias,
create_index,
get_index_uuid,
get_index_hash,
client,
pg_driver,
admin,
submitter,
cgci_blgsp,
require_index_exists_on,
):
"""
With REQUIRE_FILE_INDEX_EXISTS = True.
Test submitting a data file that does not exist in indexd (should raise an error and should not create an index or an alias).
"""
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
# no record in indexd for this file
get_index_uuid.return_value = None
get_index_hash.return_value = None
# creating raises an error
resp = submit_metadata_file(client, pg_driver, admin, submitter,
cgci_blgsp)
assert resp.status_code == 400
# no index or alias creation
assert not create_index.called
assert not create_alias.called
# response
assert_negative_response(resp)
entity = assert_single_entity_from_response(resp)
assert entity["action"] == "create"
def test_create_file_no_required_index(create_alias, create_index,
get_index_uuid, get_index_hash, client,
pg_driver, admin, submitter, cgci_blgsp,
require_index_exists_on):
"""
With REQUIRE_FILE_INDEX_EXISTS = True.
Test submitting a data file that does not exist in indexd (should raise an error and should not create an index or an alias).
"""
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
# no record in indexd for this file
get_index_uuid.return_value = None
get_index_hash.return_value = None
# creating raises an error
resp = submit_metadata_file(client, pg_driver, admin, submitter,
cgci_blgsp)
assert resp.status_code == 400
# no index or alias creation
assert not create_index.called
assert not create_alias.called
# response
assert_negative_response(resp)
entity = assert_single_entity_from_response(resp)
assert entity['action'] == 'create'
path = '/v0/submission/CGCI/BLGSP/export/?format=json&ids={nid}'.format(
nid=entity['id'])
r = client.get(path, headers=submitter)
data = r.json
assert len(data) == 1
def test_data_file_not_indexed(create_alias, create_index, get_index_uuid,
get_index_hash, client, pg_driver, admin,
submitter, cgci_blgsp, monkeypatch):
"""
Test node and data file creation when neither exist and no ID is provided.
"""
monkeypatch.setitem(flask.current_app.config, 'USE_SIGNPOST', True)
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
get_index_uuid.return_value = None
get_index_hash.return_value = None
# signpost create will return a document
document = MagicMock()
document.did = '14fd1746-61bb-401a-96d2-342cfaf70000'
create_index.return_value = document
resp = submit_metadata_file(client, pg_driver, admin, submitter,
cgci_blgsp)
# index creation should be called with no args for SIGNPOST
assert create_index.call_count == 1
args, kwargs = create_index.call_args_list[0]
assert not args
assert not kwargs
# no support for aliases
assert not create_alias.called
# response
assert_positive_response(resp)
entity = assert_single_entity_from_response(resp)
assert entity['action'] == 'create'
def test_data_file_update_url(
create_alias,
create_index,
get_index_uuid,
get_index_hash,
client,
pg_driver,
admin,
submitter,
cgci_blgsp,
):
"""
Test submitting the same data again but updating the URL field (should
get added to the indexed file in index service).
"""
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
document = MagicMock()
document.did = "14fd1746-61bb-401a-96d2-342cfaf70000"
document.urls = [DEFAULT_URL]
get_index_hash.return_value = document
# only return the correct document by uuid IF the uuid provided is
# the one from above
def get_index_by_uuid(uuid):
if uuid == document.did:
return document
else:
return None
get_index_uuid.side_effect = get_index_by_uuid
submit_metadata_file(client, pg_driver, admin, submitter, cgci_blgsp)
# now submit again but change url
new_url = "some/new/url/location/to/add"
updated_file = copy.deepcopy(DEFAULT_METADATA_FILE)
updated_file["urls"] = new_url
resp = submit_metadata_file(client,
pg_driver,
admin,
submitter,
cgci_blgsp,
data=updated_file)
# no index or alias creation
assert not create_index.called
assert not create_alias.called
# make sure new url are in the document and patch gets called
assert document.urls == [new_url]
assert document.patch.called
# response
assert_positive_response(resp)
entity = assert_single_entity_from_response(resp)
assert entity["action"] == "update"
assert entity["id"] != document.did
def test_data_file_update_multiple_urls(create_alias, create_index,
get_index_uuid, get_index_hash, client,
pg_driver, admin, submitter,
cgci_blgsp):
"""
Test submitting the same data again but updating the URL field (should
get added to the indexed file in index service).
"""
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
document = MagicMock()
document.did = '14fd1746-61bb-401a-96d2-342cfaf70000'
document.urls = [DEFAULT_URL]
get_index_hash.return_value = document
# only return the correct document by uuid IF the uuid provided is
# the one from above
def get_index_by_uuid(uuid):
if uuid == document.did:
return document
else:
return None
get_index_uuid.side_effect = get_index_by_uuid
submit_metadata_file(client, pg_driver, admin, submitter, cgci_blgsp)
# now submit again but change url
new_url = 'some/new/url/location/to/add'
another_new_url = 'some/other/url'
updated_file = copy.deepcopy(DEFAULT_METADATA_FILE)
# comma separated list of urls INCLUDING the url that's already there
updated_file['urls'] = DEFAULT_URL + ',' + new_url + ',' + another_new_url
resp = submit_metadata_file(client,
pg_driver,
admin,
submitter,
cgci_blgsp,
data=updated_file)
# no index or alias creation
assert not create_index.called
assert not create_alias.called
# make sure original url and new url are in the document and patch gets called
assert DEFAULT_URL in document.urls
assert new_url in document.urls
assert another_new_url in document.urls
assert document.patch.called
# make sure no duplicates were added
assert len(document.urls) == 3
# response
assert_positive_response(resp)
entity = assert_single_entity_from_response(resp)
assert entity['action'] == 'update'
def test_data_file_update_url_id_provided(create_alias, create_index,
get_index_uuid, get_index_hash,
client, pg_driver, admin, submitter,
cgci_blgsp):
"""
Test submitting the same data again (with the id provided) and updating the
URL field (should get added to the indexed file in index service).
"""
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
document = MagicMock()
document.did = '14fd1746-61bb-401a-96d2-342cfaf70000'
document.urls = [DEFAULT_URL]
get_index_hash.return_value = document
# only return the correct document by uuid IF the uuid provided is
# the one from above
def get_index_by_uuid(uuid):
if uuid == document.did:
return document
else:
return None
get_index_uuid.side_effect = get_index_by_uuid
submit_metadata_file(client, pg_driver, admin, submitter, cgci_blgsp)
# now submit again but change url
new_url = 'some/new/url/location/to/add'
updated_file = copy.deepcopy(DEFAULT_METADATA_FILE)
updated_file['urls'] = new_url
updated_file['id'] = document.did
resp = submit_metadata_file(client,
pg_driver,
admin,
submitter,
cgci_blgsp,
data=updated_file)
# no index or alias creation
assert not create_index.called
assert not create_alias.called
# make sure original url and new url are in the document and patch gets called
assert DEFAULT_URL in document.urls
assert new_url in document.urls
assert document.patch.called
# response
assert_positive_response(resp)
entity = assert_single_entity_from_response(resp)
assert entity['action'] == 'update'
# make sure uuid in node is the same as the uuid from index
# FIXME this is a temporary solution so these tests will probably
# need to change in the future
assert entity['id'] == document.did
def test_data_file_not_indexed_id_provided(
create_alias,
create_index,
get_index_uuid,
get_index_hash,
client,
pg_driver,
admin,
submitter,
cgci_blgsp,
monkeypatch,
):
"""
Test node and data file creation when neither exist and an ID is provided.
NOTE: signpostclient will NOT create add a file to the index service if an ID
is provided
"""
monkeypatch.setitem(flask.current_app.config, "USE_SIGNPOST", True)
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
get_index_uuid.return_value = None
get_index_hash.return_value = None
# signpost create will return a document
document = MagicMock()
document.did = "14fd1746-61bb-401a-96d2-342cfaf70000"
create_index.return_value = document
file = copy.deepcopy(DEFAULT_METADATA_FILE)
file["id"] = DEFAULT_UUID
resp = submit_metadata_file(
client, pg_driver, admin, submitter, cgci_blgsp, data=file
)
# no index creation
assert not create_index.called
# no support for aliases
assert not create_alias.called
# response
assert_negative_response(resp)
assert_single_entity_from_response(resp)
def test_data_file_already_indexed_id_provided(
create_alias,
create_index,
get_index_uuid,
get_index_hash,
client,
pg_driver,
admin,
submitter,
cgci_blgsp,
):
"""
Test submitting when the file is already indexed in the index client and
an id is provided in the submission.
"""
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
document = MagicMock()
document.did = "14fd1746-61bb-401a-96d2-342cfaf70000"
get_index_uuid.return_value = document
get_index_hash.return_value = document
# only return the correct document by uuid IF the uuid provided is
# the one from above
def get_index_by_uuid(uuid):
if uuid == document.did:
return document
else:
return None
get_index_uuid.side_effect = get_index_by_uuid
file = copy.deepcopy(DEFAULT_METADATA_FILE)
file["id"] = document.did
resp = submit_metadata_file(client,
pg_driver,
admin,
submitter,
cgci_blgsp,
data=file)
# no index or alias creation
assert not create_index.called
assert not create_alias.called
# response
assert_positive_response(resp)
entity = assert_single_entity_from_response(resp)
assert entity["action"] == "create"
# make sure uuid in node is the same as the uuid from index
# FIXME this is a temporary solution so these tests will probably
# need to change in the future
assert entity["id"] == document.did
def test_can_submit_data_file_with_asterisk_json(
create_alias,
create_index,
get_index_uuid,
get_index_hash,
client,
pg_driver,
admin,
submitter,
cgci_blgsp,
):
"""
Test that we can submit a file when some fields have asterisks prepended
"""
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
document = MagicMock()
document.did = "14fd1746-61bb-401a-96d2-342cfaf70000"
get_index_uuid.return_value = document
get_index_hash.return_value = document
# only return the correct document by uuid IF the uuid provided is
# the one from above
def get_index_by_uuid(uuid):
if uuid == document.did:
return document
else:
return None
get_index_uuid.side_effect = get_index_by_uuid
file = copy.deepcopy(DEFAULT_METADATA_FILE)
file["id"] = document.did
# insert asterisks before the property names
for key in file.keys():
file["*{}".format(key)] = file.pop(key)
resp = submit_metadata_file(client,
pg_driver,
admin,
submitter,
cgci_blgsp,
data=file)
# no index or alias creation
assert not create_index.called
assert not create_alias.called
# response
assert_positive_response(resp)
entity = assert_single_entity_from_response(resp)
assert entity["action"] == "create"
def test_data_file_not_indexed_id_provided(
create_alias,
create_index,
get_index_uuid,
get_index_hash,
client,
pg_driver,
admin,
submitter,
cgci_blgsp,
require_index_exists_off,
):
"""
Test node and data file creation when neither exist and an ID is provided.
That ID should be used for the node and file index creation
"""
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
get_index_uuid.return_value = None
get_index_hash.return_value = None
file = copy.deepcopy(DEFAULT_METADATA_FILE)
file["id"] = DEFAULT_UUID
resp = submit_metadata_file(client,
pg_driver,
admin,
submitter,
cgci_blgsp,
data=file)
# index creation
assert create_index.call_count == 1
args, kwargs = create_index.call_args_list[0]
assert "did" in kwargs
did = kwargs["did"]
assert "hashes" in kwargs
assert kwargs["hashes"].get("md5") == DEFAULT_FILE_HASH
assert "urls" in kwargs
assert DEFAULT_URL in kwargs["urls"]
# alias creation
assert create_alias.called
# response
assert_positive_response(resp)
entity = assert_single_entity_from_response(resp)
assert entity["action"] == "create"
# make sure uuid in node is the same as the uuid from index
# FIXME this is a temporary solution so these tests will probably
# need to change in the future
assert did == DEFAULT_UUID
assert entity["id"] == DEFAULT_UUID
def test_link_case_insensitivity(
create_alias,
create_index,
get_index_uuid,
get_index_hash,
client,
pg_driver,
admin,
submitter,
cgci_blgsp,
):
"""
Test that links are case insensitive.
"""
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
for i in range(16):
document = MagicMock()
document.did = "14fd1746-61bb-401a-96d2-342cfaf7000" + str(i)
document.urls = [DEFAULT_URL]
get_index_hash.return_value = document
# only return the correct document by uuid IF the uuid provided is
# the one from above
def get_index_by_uuid(uuid):
if uuid == document.did:
return document
else:
return None
get_index_uuid.side_effect = get_index_by_uuid
updated_file = copy.deepcopy(DEFAULT_METADATA_FILE)
updated_file["submitter_id"] = str(i)
updated_file["experiments"]["submitter_id"] = "".join(
random.choice([k.upper(), k.lower()])
for k in updated_file["experiments"]["submitter_id"])
resp = submit_metadata_file(client,
pg_driver,
admin,
submitter,
cgci_blgsp,
data=updated_file)
# no index or alias creation
assert not create_index.called
assert not create_alias.called
# response
assert_positive_response(resp)
entity = assert_single_entity_from_response(resp)
assert entity["action"] == "create"
def test_data_file_already_indexed(
create_alias,
create_index,
get_index_uuid,
get_index_hash,
client,
pg_driver,
admin,
submitter,
cgci_blgsp,
):
"""
Test submitting when the file is already indexed in the index client and
no ID is provided. sheepdog should fall back on the hash/size of the file
to find it in indexing service.
"""
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
document = MagicMock()
document.did = "14fd1746-61bb-401a-96d2-342cfaf70000"
get_index_hash.return_value = document
# only return the correct document by uuid IF the uuid provided is
# the one from above
def get_index_by_uuid(uuid):
if uuid == document.did:
return document
else:
return None
get_index_uuid.side_effect = get_index_by_uuid
resp = submit_metadata_file(client, pg_driver, admin, submitter,
cgci_blgsp)
# no index or alias creation
assert not create_index.called
assert not create_alias.called
# response
assert_positive_response(resp)
entity = assert_single_entity_from_response(resp)
assert entity["action"] == "create"
path = "/v0/submission/CGCI/BLGSP/export/?format=json&ids={nid}".format(
nid=entity["id"])
r = client.get(path, headers=submitter)
data = r.json
assert len(data) == 1
assert data[0]["object_id"] == document.did
assert data[0]["id"] != document.did
def test_data_file_already_indexed(
create_alias,
create_index,
get_index_uuid,
get_index_hash,
client,
pg_driver,
admin,
submitter,
cgci_blgsp,
monkeypatch,
):
"""
Test submitting when the file is already indexed in the index client and
no ID is provided. sheepdog should fall back on the hash/size of the file
to find it in indexing service.
NOTE: signpostclient will create another file in the index service regardless
of whether or not the file exists. signpostclient does not
have capabilities of searching for files based on hash/size
"""
monkeypatch.setitem(flask.current_app.config, "USE_SIGNPOST", True)
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
# signpostclient cannot find by hash/size
get_index_hash.return_value = None
get_index_uuid.return_value = None
# signpost create will return a document
document = MagicMock()
document.did = "14fd1746-61bb-401a-96d2-342cfaf70000"
create_index.return_value = document
resp = submit_metadata_file(client, pg_driver, admin, submitter, cgci_blgsp)
# index creation should be called with no args for SIGNPOST
assert create_index.call_count == 1
args, kwargs = create_index.call_args_list[0]
assert not args
assert not kwargs
# no support for aliases
assert not create_alias.called
# response
assert_positive_response(resp)
entity = assert_single_entity_from_response(resp)
assert entity["action"] == "create"
def test_data_file_not_indexed(
create_alias,
create_index,
get_index_uuid,
get_index_hash,
client,
pg_driver,
admin,
submitter,
cgci_blgsp,
require_index_exists_off,
):
"""
Test node and data file creation when neither exist and no ID is provided.
"""
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
get_index_uuid.return_value = None
get_index_hash.return_value = None
resp = submit_metadata_file(client, pg_driver, admin, submitter,
cgci_blgsp)
# index creation
assert create_index.call_count == 1
_, kwargs = create_index.call_args_list[0]
assert "did" in kwargs
did = kwargs["did"]
assert "hashes" in kwargs
assert kwargs["hashes"].get("md5") == DEFAULT_FILE_HASH
assert "urls" in kwargs
assert DEFAULT_URL in kwargs["urls"]
# alias creation
assert create_alias.called
# response
assert_positive_response(resp)
entity = assert_single_entity_from_response(resp)
assert entity["action"] == "create"
path = "/v0/submission/CGCI/BLGSP/export/?format=json&ids={nid}".format(
nid=entity["id"])
r = client.get(path, headers=submitter)
data = r.json
assert len(data) == 1
assert did == None
def test_data_file_already_indexed(create_alias, create_index, get_index_uuid,
get_index_hash, client, pg_driver, admin,
submitter, cgci_blgsp):
"""
Test submitting when the file is already indexed in the index client and
no ID is provided. sheepdog should fall back on the hash/size of the file
to find it in indexing service.
"""
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
document = MagicMock()
document.did = '14fd1746-61bb-401a-96d2-342cfaf70000'
get_index_hash.return_value = document
# only return the correct document by uuid IF the uuid provided is
# the one from above
def get_index_by_uuid(uuid):
if uuid == document.did:
return document
else:
return None
get_index_uuid.side_effect = get_index_by_uuid
resp = submit_metadata_file(client, pg_driver, admin, submitter,
cgci_blgsp)
# no index or alias creation
assert not create_index.called
assert not create_alias.called
# response
assert_positive_response(resp)
entity = assert_single_entity_from_response(resp)
assert entity['action'] == 'create'
# make sure uuid in node is the same as the uuid from index
# FIXME this is a temporary solution so these tests will probably
# need to change in the future
assert entity['id'] == document.did
def test_data_file_not_indexed(
create_alias, create_index, get_index_uuid, get_index_hash,
client, pg_driver, admin, submitter, cgci_blgsp,
require_index_exists_off):
"""
Test node and data file creation when neither exist and no ID is provided.
"""
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
get_index_uuid.return_value = None
get_index_hash.return_value = None
resp = submit_metadata_file(client, pg_driver, admin, submitter, cgci_blgsp)
# index creation
assert create_index.call_count == 1
_, kwargs = create_index.call_args_list[0]
assert 'did' in kwargs
did = kwargs['did']
assert 'hashes' in kwargs
assert kwargs['hashes'].get('md5') == DEFAULT_FILE_HASH
assert 'urls' in kwargs
assert DEFAULT_URL in kwargs['urls']
# alias creation
assert create_alias.called
# response
assert_positive_response(resp)
entity = assert_single_entity_from_response(resp)
assert entity['action'] == 'create'
# make sure uuid in node is the same as the uuid from index
# FIXME this is a temporary solution so these tests will probably
# need to change in the future
assert entity['id'] == did
def test_data_file_already_indexed_object_id_provided_no_hash(
create_alias,
create_index,
get_index_uuid,
get_index_hash,
client,
pg_driver,
admin,
submitter,
cgci_blgsp,
):
"""
Test submitting when the file is already indexed in the index client,
its object_id is provided in the submission, and the size and hash DO NOT
match those of the indexed file. The empty acl means the file was just
uploaded and the empty hash and size mean the file is not ready for
metadata submission yet.
The submission should fail. The acl and uploader field should NOT have
been updated.
"""
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
file = copy.deepcopy(DEFAULT_METADATA_FILE)
# provide the object_id of an existing indexed file
file["object_id"] = "14fd1746-61bb-401a-96d2-342cfaf70000"
document = MagicMock()
document.did = file["object_id"]
document.size = None
document.hashes = None
document.acl = []
document.uploader = DEFAULT_SUBMITTER_ID
get_index_uuid.return_value = document
get_index_hash.return_value = document
# only return the correct document by uuid IF the uuid provided is
# the one from above
def get_index_by_uuid(uuid):
if uuid == document.did:
return document
else:
return None
get_index_uuid.side_effect = get_index_by_uuid
resp = submit_metadata_file(client,
pg_driver,
admin,
submitter,
cgci_blgsp,
data=file)
# no index or alias creation
assert not create_index.called
assert not create_alias.called
# response
assert_negative_response(resp)
entity = assert_single_entity_from_response(resp)
# check that the acl and uploader fields have NOT been updated in indexd
assert not document.acl
assert document.uploader == DEFAULT_SUBMITTER_ID
def test_data_file_already_indexed_object_id_provided_hash_match(
update_acl_uploader_indexd,
create_alias,
create_index,
get_index_uuid,
get_index_hash,
client,
pg_driver,
admin,
submitter,
submitter_name,
cgci_blgsp,
):
"""
Test submitting when the file is already indexed in the index client,
an id is provided in the submission, and the size and hash match those
of the indexed file. The empty acl means the file was just uploaded.
The submission should succeed but no new index should be created. The acl
and uploader field should have been updated as part of the data upload
flow.
"""
submit_first_experiment(client, pg_driver, admin, submitter, cgci_blgsp)
file = copy.deepcopy(DEFAULT_METADATA_FILE)
# provide the object_id of an existing indexed file
file["object_id"] = "14fd1746-61bb-401a-96d2-342cfaf70000"
document = MagicMock()
document.did = file["object_id"]
document.size = file["file_size"]
document.hashes = {"md5": file["md5sum"], "other": "abc123"}
document.acl = []
document.uploader = submitter_name
get_index_uuid.return_value = document
get_index_hash.return_value = document
# only return the correct document by uuid IF the uuid provided is
# the one from above
def get_index_by_uuid(uuid):
if uuid == document.did:
return document
else:
return None
get_index_uuid.side_effect = get_index_by_uuid
resp = submit_metadata_file(client,
pg_driver,
admin,
submitter,
cgci_blgsp,
data=file)
# no index or alias creation
assert not create_index.called
assert not create_alias.called
# response
assert_positive_response(resp)
entity = assert_single_entity_from_response(resp)
assert entity["action"] == "create"
path = "/v0/submission/CGCI/BLGSP/export/?format=json&ids={nid}".format(
nid=entity["id"])
r = client.get(path, headers=submitter)
data = r.json
assert len(data) == 1
assert data[0]["object_id"] == file["object_id"]
# check that the acl and uploader fields have been updated in indexd
assert update_acl_uploader_indexd.called
