def test_incomplete_records_data(app, test_communities):
"""Create incomplete record data and the corresponding patch."""
invalid_patches = [[
# no title
{ "op": "remove", "path": "/titles"}
], [
# no community_specific
{
"op": "remove",
"path": "/community_specific"
}
], [
# no study_design
{
"op": "remove",
"path": "/community_specific/"
"$BLOCK_SCHEMA_ID[MyTestSchema]/study_design"
}
], [
# minItems not matched (should be >= 1)
{
"op": "replace",
"path": "/community_specific/"
"$BLOCK_SCHEMA_ID[MyTestSchema]/study_design",
"value": []
}
]]
IncompleteRecordData = namedtuple(
'IncompleteRecordData', ['complete_data', 'patch', 'incomplete_data']
)
with app.app_context():
unresolved_data = {
'titles': [{'title':'My Test BBMRI Record'}],
'community': '$COMMUNITY_ID[MyTestCommunity1]',
"open_access": True,
'community_specific': {
'$BLOCK_SCHEMA_ID[MyTestSchema]': {
'study_design': ['Case-control']
}
}
}
data = json.loads(resolve_block_schema_id(resolve_community_id(
json.dumps(unresolved_data))))
resolved_patches = [
json.loads(resolve_block_schema_id(resolve_community_id(
json.dumps(data)))
) for data in invalid_patches
]
return [IncompleteRecordData(deepcopy(data), patch,
apply_patch(data, patch))
for patch in resolved_patches]
def test_incomplete_records_data(app, test_communities):
"""Create incomplete record data and the corresponding patch."""
invalid_patches = [[
# no title
{ "op": "remove", "path": "/titles"}
], [
# no community_specific
{
"op": "remove",
"path": "/community_specific"
}
], [
# no study_design
{
"op": "remove",
"path": "/community_specific/"
"$BLOCK_SCHEMA_ID[MyTestSchema]/study_design"
}
], [
# minItems not matched (should be >= 1)
{
"op": "replace",
"path": "/community_specific/"
"$BLOCK_SCHEMA_ID[MyTestSchema]/study_design",
"value": []
}
]]
IncompleteRecordData = namedtuple(
'IncompleteRecordData', ['complete_data', 'patch', 'incomplete_data']
)
with app.app_context():
unresolved_data = {
'titles': [{'title':'My Test BBMRI Record'}],
'community': '$COMMUNITY_ID[MyTestCommunity1]',
"open_access": True,
'community_specific': {
'$BLOCK_SCHEMA_ID[MyTestSchema]': {
'study_design': ['Case-control']
}
}
}
data = json.loads(resolve_block_schema_id(resolve_community_id(
json.dumps(unresolved_data))))
resolved_patches = [
json.loads(resolve_block_schema_id(resolve_community_id(
json.dumps(data)))
) for data in invalid_patches
]
return [IncompleteRecordData(deepcopy(data), patch,
apply_patch(data, patch))
for patch in resolved_patches]
def records_data_with_external_pids(app, test_communities):
record_data = json.dumps({
"external_pids":[
{
"key":"file1.txt",
"ePIC_PID": "http://hdl.handle.net/11304/0d8dbdec-74e4-4774-954e-1a98e5c0cfa3"
}, {
"key":"file1_copy.txt",
"ePIC_PID": "http://hdl.handle.net/11304/0d8dbdec-74e4-4774-954e-1a98e5c0cfa3"
}, {
"key":"file2.txt",
"ePIC_PID": "http://hdl.handle.net/11304/50fafc50-4227-4464-bacc-2d85295c18a7"
}
],
'titles': [{'title':'BBMRI dataset 6'}],
'community': '$COMMUNITY_ID[MyTestCommunity2]',
'open_access': True,
'community_specific': {
'$BLOCK_SCHEMA_ID[MyTestSchema]': {
'study_design': ['Case-control']
}
}
})
with app.app_context():
return json.loads(resolve_block_schema_id(resolve_community_id(
record_data)))
def records_data_with_external_pids(app, test_communities):
record_data = json.dumps({
"external_pids": [{
"key":
"file1.txt",
"ePIC_PID":
"http://hdl.handle.net/11304/0d8dbdec-74e4-4774-954e-1a98e5c0cfa3"
}, {
"key":
"file1_copy.txt",
"ePIC_PID":
"http://hdl.handle.net/11304/0d8dbdec-74e4-4774-954e-1a98e5c0cfa3"
}, {
"key":
"file2.txt",
"ePIC_PID":
"http://hdl.handle.net/11304/50fafc50-4227-4464-bacc-2d85295c18a7"
}],
'titles': [{
'title': 'BBMRI dataset 6'
}],
'community':
'$COMMUNITY_ID[MyTestCommunity2]',
'open_access':
True,
'community_specific': {
'$BLOCK_SCHEMA_ID[MyTestSchema]': {
'study_design': ['Case-control']
}
}
})
with app.app_context():
return json.loads(
resolve_block_schema_id(resolve_community_id(record_data)))
def make_record_json():
record_data = {
'owner': '',
'titles': [{'title':'My Errorneous BBMRI record'}],
'community': '$COMMUNITY_ID[MyTestCommunity1]',
'open_access': True,
'creators': [{'creator_name':'Anonymous'}],
'community_specific': {
'$BLOCK_SCHEMA_ID[MyTestSchema]': {
'study_design': ['Case-control']
}
}
}
record_str = json.dumps(record_data)
record_str = resolve_community_id(record_str)
record_str = resolve_block_schema_id(record_str)
return json.loads(record_str)
def resolve_record_data(data):
"""Resolve community and block schema IDs in the given record data."""
return json.loads(
resolve_block_schema_id(resolve_community_id(json.dumps(data)))
)
def test_records_data(app, test_communities):
"""Generate test deposits data.
Returns:
:list: list of generated record data
"""
records_data = [{
'titles': [{'title':'My Test BBMRI Record'}],
'descriptions': [{'description':"The long description of My Test BBMRI Record",
'description_type': "Abstract"}],
'creators': [{'creator_name': 'Glados, R.'}, {'creator_name': 'Cube, Companion'}],
'publisher': 'Aperture Science',
'publication_date': '2000-12-12',
'disciplines': ['5.14.17.10 → Weapon|Military weapons → Nuclear warfare|Nuclear'],
'keywords': ['phaser', 'laser', 'maser', 'portal gun'],
'contributors': [{'contributor_name': "Turret", "contributor_type": "ContactPerson"}],
'language': "eng",
'resource_types': [{'resource_type': "Casualities", 'resource_type_general': "Dataset"}],
'alternate_identifiers': [{'alternate_identifier': "007",
'alternate_identifier_type': "Fleming"}],
'license': {'license':"GNU Public License", 'license_uri': "http://gnu.org"},
'community': '$COMMUNITY_ID[MyTestCommunity1]',
'open_access': True,
'contact_email': '*****@*****.**',
'community_specific': {
'$BLOCK_SCHEMA_ID[MyTestSchema]': {
'study_design': ['Case-control']
}
}
}, {
'titles': [{'title':'New BBMRI dataset'}],
'community': '$COMMUNITY_ID[MyTestCommunity1]',
'open_access': True,
'community_specific': {
'$BLOCK_SCHEMA_ID[MyTestSchema]': {
'study_design': ['Case-control']
}
}
}, {
'titles': [{'title':'BBMRI dataset 3'}],
'community': '$COMMUNITY_ID[MyTestCommunity1]',
'open_access': True,
'community_specific': {
'$BLOCK_SCHEMA_ID[MyTestSchema]': {
'study_design': ['Case-control']
}
}
}, {
'titles': [{'title':'BBMRI dataset 4'}],
# community 2
'community': '$COMMUNITY_ID[MyTestCommunity2]',
'open_access': True,
'community_specific': {
'$BLOCK_SCHEMA_ID[MyTestSchema]': {
'study_design': ['Case-control']
}
}
}, {
'titles': [{'title':'BBMRI dataset 5'}],
# community 2
'community': '$COMMUNITY_ID[MyTestCommunity2]',
'open_access': True,
'community_specific': {
'$BLOCK_SCHEMA_ID[MyTestSchema]': {
'study_design': ['Case-control']
}
}
}, {
'titles': [{'title':'BBMRI dataset 6'}],
# community 2
'community': '$COMMUNITY_ID[MyTestCommunity2]',
'open_access': True,
'community_specific': {
'$BLOCK_SCHEMA_ID[MyTestSchema]': {
'study_design': ['Case-control']
}
}
}]
with app.app_context():
return [
json.loads(resolve_block_schema_id(resolve_community_id(
json.dumps(data)))
) for data in records_data
]
def test_records_data(app, test_communities):
"""Generate test deposits data.
Returns:
:list: list of generated record data
"""
records_data = [{
'titles': [{'title':'My Test BBMRI Record'}],
'descriptions': [{'description':"The long description of My Test BBMRI Record",
'description_type': "Abstract"}],
'creators': [{'creator_name': 'Glados, R.'}, {'creator_name': 'Cube, Companion'}],
'publisher': 'Aperture Science',
'publication_date': '2000-12-12',
'disciplines': ['5.14.17.10 → Weapon|Military weapons → Nuclear warfare|Nuclear'],
'keywords': ['phaser', 'laser', 'maser', 'portal gun'],
'contributors': [{'contributor_name': "Turret", "contributor_type": "ContactPerson"}],
'language': "eng",
'resource_types': [{'resource_type': "Casualities", 'resource_type_general': "Dataset"}],
'alternate_identifiers': [{'alternate_identifier': "007",
'alternate_identifier_type': "Fleming"}],
'license': {'license':"GNU Public License", 'license_uri': "http://gnu.org"},
'community': '$COMMUNITY_ID[MyTestCommunity1]',
'open_access': True,
'contact_email': '*****@*****.**',
'community_specific': {
'$BLOCK_SCHEMA_ID[MyTestSchema]': {
'study_design': ['Case-control']
}
}
}, {
'titles': [{'title':'New BBMRI dataset'}],
'community': '$COMMUNITY_ID[MyTestCommunity1]',
'open_access': True,
'community_specific': {
'$BLOCK_SCHEMA_ID[MyTestSchema]': {
'study_design': ['Case-control']
}
}
}, {
'titles': [{'title':'BBMRI dataset 3'}],
'community': '$COMMUNITY_ID[MyTestCommunity1]',
'open_access': True,
'community_specific': {
'$BLOCK_SCHEMA_ID[MyTestSchema]': {
'study_design': ['Case-control']
}
}
}, {
'titles': [{'title':'BBMRI dataset 4'}],
# community 2
'community': '$COMMUNITY_ID[MyTestCommunity2]',
'open_access': True,
'community_specific': {
'$BLOCK_SCHEMA_ID[MyTestSchema]': {
'study_design': ['Case-control']
}
}
}, {
'titles': [{'title':'BBMRI dataset 5'}],
# community 2
'community': '$COMMUNITY_ID[MyTestCommunity2]',
'open_access': True,
'community_specific': {
'$BLOCK_SCHEMA_ID[MyTestSchema]': {
'study_design': ['Case-control']
}
}
}, {
'titles': [{'title':'BBMRI dataset 6'}],
# community 2
'community': '$COMMUNITY_ID[MyTestCommunity2]',
'open_access': True,
'community_specific': {
'$BLOCK_SCHEMA_ID[MyTestSchema]': {
'study_design': ['Case-control']
}
}
}]
with app.app_context():
return [
json.loads(resolve_block_schema_id(resolve_community_id(
json.dumps(data)))
) for data in records_data
]
def resolve_record_data(data):
"""Resolve community and block schema IDs in the given record data."""
return json.loads(
resolve_block_schema_id(resolve_community_id(json.dumps(data)))
)
