def test_twin_tags_projects(self, userA, userB, projects_userA,
tags_userA_userB):
"""
Test two users annotate the two Projects with the same tag(s)
"""
conn = get_connection(userA)
tag1 = tags_userA_userB[0]
tag2 = tags_userA_userB[1]
project1 = projects_userA[0]
project2 = projects_userA[1]
link1 = annotate_project(tag1, project1, userA)
link2 = annotate_project(tag1, project2, userB)
link3 = annotate_project(tag2, project2, userB)
link4 = annotate_project(tag2, project2, userA)
expected = expected_annotations(userA, [link1, link2, link3, link4])
pids = [p.id.val for p in projects_userA]
marshaled = marshal_annotations(conn=conn, project_ids=pids)
annotations, experimenters = marshaled
experimenters.sort(key=lambda x: x['id'])
anns, exps = expected
# need to sort since marshal_annotations doesn't sort yet
annotations.sort(key=lambda x: x['link']['id'])
anns.sort(key=lambda x: x['link']['id'])
assert len(annotations) == 4
assert len(experimenters) == 2
assert annotations[0] == anns[0]
assert annotations[1] == anns[1]
assert annotations[2] == anns[2]
assert annotations[3] == anns[3]
assert experimenters == exps
def well_annotations(request, screen, conn=None, **kwargs):
"""
Return Annotations on child Wells.
JSON format same as for webclient/api/annotations/?type=map
"""
ann_type = request.GET.get('type', None)
# get wells in Screen
queryService = conn.getQueryService()
params = ParametersI()
params.addId(screen)
query = """select well.id from Well as well
join well.plate plate
join plate.screenLinks screenLinks
where screenLinks.parent.id=:id
"""
result = queryService.projection(query, params, conn.SERVICE_OPTS)
iids = [r[0].val for r in result]
anns, exps = marshal_annotations(conn,
well_ids=iids,
ann_type=ann_type,
limit=100000)
return JsonResponse({'annotations': anns, 'experimenters': exps})
def test_twin_tags_userA_userB(self, userA, userB, project_userA,
tags_userA_userB):
"""
Test two users annotate the same Project with the same tag
"""
conn = get_connection(userA)
tag1 = tags_userA_userB[0]
tag2 = tags_userA_userB[1]
project = project_userA
link1 = annotate_project(tag1, project, userA)
link2 = annotate_project(tag1, project, userB)
link3 = annotate_project(tag2, project, userB)
expected = expected_annotations(userA, [link1, link2, link3])
marshaled = marshal_annotations(conn=conn,
project_ids=[project.id.val])
annotations, experimenters = marshaled
experimenters.sort(key=lambda x: x['id'])
anns, exps = expected
# need to sort since marshal_annotations doesn't sort yet
annotations.sort(key=lambda x: x['link']['id'])
anns.sort(key=lambda x: x['link']['id'])
assert len(annotations) == 3
assert len(experimenters) == 2
assert annotations[0] == anns[0]
assert annotations[1] == anns[1]
assert annotations[2] == anns[2]
assert experimenters == exps
def image_annotations(request, project, conn=None, **kwargs):
"""
Return Annotations on child Images.
JSON format same as for webclient/api/annotations/?type=map
"""
ann_type = request.GET.get('type', None)
# get images in Project
queryService = conn.getQueryService()
params = ParametersI()
params.addId(project)
query = """select image.id from Image as image
join image.datasetLinks datasetLinks
join datasetLinks.parent as dataset
join dataset.projectLinks projectLinks
where projectLinks.parent.id=:id
"""
result = queryService.projection(query, params, conn.SERVICE_OPTS)
iids = [r[0].val for r in result]
anns, exps = marshal_annotations(conn,
image_ids=iids,
ann_type=ann_type,
limit=100000)
return JsonResponse({'annotations': anns, 'experimenters': exps})
def test_twin_tags_projects(self, userA, userB, projects_userA,
tags_userA_userB):
"""
Test two users annotate the two Projects with the same tag(s)
"""
conn = get_connection(userA)
tag1 = tags_userA_userB[0]
tag2 = tags_userA_userB[1]
project1 = projects_userA[0]
project2 = projects_userA[1]
link1 = annotate_project(tag1, project1, userA)
link2 = annotate_project(tag1, project2, userB)
link3 = annotate_project(tag2, project2, userB)
link4 = annotate_project(tag2, project2, userA)
expected = expected_annotations(userA, [link1, link2, link3, link4])
pids = [p.id.val for p in projects_userA]
marshaled = marshal_annotations(conn=conn, project_ids=pids)
annotations, experimenters = marshaled
experimenters.sort(key=lambda x: x['id'])
anns, exps = expected
# need to sort since marshal_annotations doesn't sort yet
annotations.sort(key=lambda x: x['link']['id'])
anns.sort(key=lambda x: x['link']['id'])
assert len(annotations) == 4
assert len(experimenters) == 2
assert annotations[0] == anns[0]
assert annotations[1] == anns[1]
assert annotations[2] == anns[2]
assert annotations[3] == anns[3]
assert experimenters == exps
def test_twin_tags_userA_userB(self, userA, userB, project_userA,
tags_userA_userB):
"""
Test two users annotate the same Project with the same tag
"""
conn = get_connection(userA)
tag1 = tags_userA_userB[0]
tag2 = tags_userA_userB[1]
project = project_userA
link1 = annotate_project(tag1, project, userA)
link2 = annotate_project(tag1, project, userB)
link3 = annotate_project(tag2, project, userB)
expected = expected_annotations(userA, [link1, link2, link3])
marshaled = marshal_annotations(conn=conn,
project_ids=[project.id.val])
annotations, experimenters = marshaled
experimenters.sort(key=lambda x: x['id'])
anns, exps = expected
# need to sort since marshal_annotations doesn't sort yet
annotations.sort(key=lambda x: x['link']['id'])
anns.sort(key=lambda x: x['link']['id'])
assert len(annotations) == 3
assert len(experimenters) == 2
assert annotations[0] == anns[0]
assert annotations[1] == anns[1]
assert annotations[2] == anns[2]
assert experimenters == exps
def test_filter_by_namespace(self, userA, project_userA, rating_userA,
comments_userA):
"""Test filtering of Annotations by Namespace."""
conn = get_connection(userA)
comment1, comment2 = comments_userA
rating = rating_userA
project = project_userA
rating_link = annotate_project(rating, project, userA)
annotate_project(comment1, project, userA)
annotate_project(comment2, project, userA)
# Filter by rating namespace should only return a single link
rating_ns = omero.constants.metadata.NSINSIGHTRATING
marshaled = marshal_annotations(conn=conn,
project_ids=[project.id.val],
ns=rating_ns)
expected = expected_annotations(userA, [rating_link])
assert marshaled[0] == expected[0]
# Confirm we get all 3 links when we don't filter
marshaled = marshal_annotations(conn=conn,
project_ids=[project.id.val])
assert len(marshaled[0]) == 3
def test_single_tag(self, userA, project_userA, tags_userA_userB):
"""
Test a single annotation added by userA
"""
conn = get_connection(userA)
tag = tags_userA_userB[0]
project = project_userA
link = annotate_project(tag, project, userA)
expected = expected_annotations(userA, [link])
marshaled = marshal_annotations(conn=conn,
project_ids=[project.id.val])
annotations, experimenters = marshaled
anns, exps = expected
assert annotations == anns
assert experimenters == exps
def test_single_tag_userB(self, userB, project_userA, tags_userA_userB):
"""
Test a single annotation added by userB
"""
conn = get_connection(userB)
tag = tags_userA_userB[0]
project = project_userA
link = annotate_project(tag, project, userB)
expected = expected_annotations(userB, [link])
marshaled = marshal_annotations(conn=conn,
project_ids=[project.id.val])
annotations, experimenters = marshaled
anns, exps = expected
assert annotations == anns
assert experimenters == exps
def test_tags_comments_project(self, userA, project_userA,
tags_userA_userB, comments_userA):
"""
Test annotate Project with the Tags and Comments
"""
conn = get_connection(userA)
tag1, tag2 = tags_userA_userB
comment1, comment2 = comments_userA
project = project_userA
link1 = annotate_project(tag1, project, userA)
link2 = annotate_project(comment1, project, userA)
link3 = annotate_project(tag2, project, userA)
link4 = annotate_project(comment2, project, userA)
# Get just the tags...
marshaled = marshal_annotations(conn=conn,
project_ids=[project.id.val],
ann_type='tag')
expected = expected_annotations(userA, [link1, link3])
annotations, experimenters = marshaled
experimenters.sort(key=lambda x: x['id'])
anns, exps = expected
# need to sort since marshal_annotations doesn't sort yet
annotations.sort(key=lambda x: x['link']['id'])
anns.sort(key=lambda x: x['link']['id'])
assert len(annotations) == 2
assert len(experimenters) == 2
assert annotations[0] == anns[0]
assert annotations[1] == anns[1]
assert experimenters == exps
# Get just the comments...
marshaled = marshal_annotations(conn=conn,
project_ids=[project.id.val],
ann_type='comment')
expected = expected_annotations(userA, [link2, link4])
annotations, experimenters = marshaled
experimenters.sort(key=lambda x: x['id'])
anns, exps = expected
# need to sort since marshal_annotations doesn't sort yet
annotations.sort(key=lambda x: x['link']['id'])
anns.sort(key=lambda x: x['link']['id'])
assert len(annotations) == 2
assert annotations[0] == anns[0]
assert annotations[1] == anns[1]
assert len(experimenters) == 1
assert annotations == anns
assert experimenters == exps
# Get all annotations
marshaled = marshal_annotations(conn=conn,
project_ids=[project.id.val])
expected = expected_annotations(userA, [link1, link2, link3, link4])
annotations, experimenters = marshaled
experimenters.sort(key=lambda x: x['id'])
anns, exps = expected
assert len(annotations) == 4
assert len(experimenters) == 2
# need to sort since marshal_annotations doesn't sort yet
annotations.sort(key=lambda x: x['link']['id'])
anns.sort(key=lambda x: x['link']['id'])
assert annotations[0] == anns[0]
assert annotations[1] == anns[1]
assert annotations[2] == anns[2]
assert annotations[3] == anns[3]
assert experimenters == exps
def test_tags_comments_project(self, userA, project_userA,
tags_userA_userB, comments_userA):
"""
Test annotate Project with the Tags and Comments
"""
conn = get_connection(userA)
tag1, tag2 = tags_userA_userB
comment1, comment2 = comments_userA
project = project_userA
link1 = annotate_project(tag1, project, userA)
link2 = annotate_project(comment1, project, userA)
link3 = annotate_project(tag2, project, userA)
link4 = annotate_project(comment2, project, userA)
# Get just the tags...
marshaled = marshal_annotations(conn=conn,
project_ids=[project.id.val],
ann_type='tag')
expected = expected_annotations(userA, [link1, link3])
annotations, experimenters = marshaled
experimenters.sort(key=lambda x: x['id'])
anns, exps = expected
# need to sort since marshal_annotations doesn't sort yet
annotations.sort(key=lambda x: x['link']['id'])
anns.sort(key=lambda x: x['link']['id'])
assert len(annotations) == 2
assert len(experimenters) == 2
assert annotations[0] == anns[0]
assert annotations[1] == anns[1]
assert experimenters == exps
# Get just the comments...
marshaled = marshal_annotations(conn=conn,
project_ids=[project.id.val],
ann_type='comment')
expected = expected_annotations(userA, [link2, link4])
annotations, experimenters = marshaled
experimenters.sort(key=lambda x: x['id'])
anns, exps = expected
# need to sort since marshal_annotations doesn't sort yet
annotations.sort(key=lambda x: x['link']['id'])
anns.sort(key=lambda x: x['link']['id'])
assert len(annotations) == 2
assert annotations[0] == anns[0]
assert annotations[1] == anns[1]
assert len(experimenters) == 1
assert annotations == anns
assert experimenters == exps
# Get all annotations
marshaled = marshal_annotations(conn=conn,
project_ids=[project.id.val])
expected = expected_annotations(userA, [link1, link2, link3, link4])
annotations, experimenters = marshaled
experimenters.sort(key=lambda x: x['id'])
anns, exps = expected
assert len(annotations) == 4
assert len(experimenters) == 2
# need to sort since marshal_annotations doesn't sort yet
annotations.sort(key=lambda x: x['link']['id'])
anns.sort(key=lambda x: x['link']['id'])
assert annotations[0] == anns[0]
assert annotations[1] == anns[1]
assert annotations[2] == anns[2]
assert annotations[3] == anns[3]
assert experimenters == exps