def testWrappers(self):
image = ImageI()
info = image._field_info
assert info.name.wrapper == rstring
assert info.acquisitionDate.wrapper == rtime
assert not info.name.nullable
assert info.acquisitionDate.nullable
image.setAcquisitionDate("1", wrap=True)
assert type(image.acquisitionDate) == type(rtime(0))
# The following causes pytest to fail!
# image.setAcquisitionDate("", wrap=True)
# Note: collections still don't work well
if False:
image.addPixels(PixelsI())
image.setPixels(0, "Pixels:1", wrap=True)
assert type(image.pixels) == omero.model.PixelsI
image.setPixels(0, "Pixels", wrap=True)
image.setPixels(0, "Unknown", wrap=True)
link = DatasetImageLinkI()
link.setParent("Dataset:1")
link.setChild("Image:1")
def testWrappers(self):
image = ImageI()
info = image._field_info
assert info.name.wrapper == rstring
assert info.acquisitionDate.wrapper == rtime
assert not info.name.nullable
assert not info.acquisitionDate.nullable
image.setAcquisitionDate("1", wrap=True)
assert type(image.acquisitionDate) == type(rtime(0))
# The following causes pytest to fail!
# image.setAcquisitionDate("", wrap=True)
# Note: collections still don't work well
if False:
image.addPixels(PixelsI())
image.setPixels(0, "Pixels:1", wrap=True)
assert type(image.pixels) == omero.model.PixelsI
image.setPixels(0, "Pixels", wrap=True)
image.setPixels(0, "Unknown", wrap=True)
link = DatasetImageLinkI()
link.setParent("Dataset:1")
link.setChild("Image:1")
def testCreateAfterBlitzPort(self):
ipojo = self.client.sf.getContainerService()
i = ImageI()
i.setName(rstring("name"))
i.setAcquisitionDate(rtime(0))
i = ipojo.createDataObject(i,None)
o = i.getDetails().owner
self.assertEquals( -1, o.sizeOfGroupExperimenterMap() )
def testCreateAfterBlitzPort(self):
ipojo = self.client.sf.getContainerService()
i = ImageI()
i.setName(rstring("name"))
i.setAcquisitionDate(rtime(0))
i = ipojo.createDataObject(i, None)
o = i.getDetails().owner
self.assertEquals(-1, o.sizeOfGroupExperimenterMap())
def test1184(self):
uuid = self.uuid()
client = self.new_client(perms="rw----")
share = client.sf.getShareService()
query = client.sf.getQueryService()
update = client.sf.getUpdateService()
admin = client.sf.getAdminService()
cont = client.sf.getContainerService()
ds = DatasetI()
ds.setName(rstring('test1184-ds-%s' % (uuid)))
for i in range(1, 2001):
img = ImageI()
img.setName(rstring('img1184-%s' % (uuid)))
img.setAcquisitionDate(rtime(time.time()))
# Saving in one go
#dil = DatasetImageLinkI()
#dil.setParent(ds)
#dil.setChild(img)
#update.saveObject(dil)
ds.linkImage(img)
ds = update.saveAndReturnObject(ds)
c = cont.getCollectionCount(ds.__class__.__name__, ("imageLinks"),
[ds.id.val], None)
self.assert_(c[ds.id.val] == 2000)
page = 1
p = omero.sys.Parameters()
p.map = {}
p.map["eid"] = rlong(admin.getEventContext().userId)
p.map["oid"] = rlong(ds.id.val)
if page is not None:
f = omero.sys.Filter()
f.limit = rint(24)
f.offset = rint((int(page) - 1) * 24)
p.theFilter = f
sql = "select im from Image im join fetch im.details.owner join fetch im.details.group " \
"left outer join fetch im.datasetLinks dil left outer join fetch dil.parent d " \
"where d.id = :oid and im.details.owner.id=:eid order by im.id asc"
start = time.time()
res = query.findAllByQuery(sql, p)
self.assertEquals(24, len(res))
end = time.time()
elapsed = end - start
self.assertTrue(
elapsed < 3.0,
"Expected the test to complete in < 3 seconds, took: %f" % elapsed)
def test2327(self):
### create two users in two groups
client_share1, user1 = self.new_client_and_user()
client_share2, user2 = self.new_client_and_user()
## login as user1
share1 = client_share1.sf.getShareService()
update1 = client_share1.sf.getUpdateService()
# create image
img = ImageI()
img.setName(rstring('test2327'))
img.setAcquisitionDate(rtime(0))
img = update1.saveAndReturnObject(img)
img.unload()
# create share
description = "my description"
timeout = None
objects = [img]
experimenters = [user2]
guests = []
enabled = True
sid = share1.createShare(description, timeout, objects, experimenters,
guests, enabled)
self.assert_(len(share1.getContents(sid)) == 1)
# add comment by the owner
share1.addComment(sid, 'test comment by the owner %s' % user1.id.val)
## login as user2
share2 = client_share2.sf.getShareService()
query2 = client_share2.sf.getQueryService()
l = share2.getMemberShares(False)
self.assertEquals(1, len(l))
# add comment by the member
share2.addComment(sid,
'test comment by the member %s' % (user2.id.val))
# Don't have to activate share2
#get comments
# by user1
c1 = len(share1.getComments(sid))
self.assertEquals(2, c1)
# by user2
c2 = len(share2.getComments(sid))
self.assertEquals(2, c2)
def test1184(self):
uuid = self.uuid()
client = self.new_client(perms="rw----")
share = client.sf.getShareService()
query = client.sf.getQueryService()
update = client.sf.getUpdateService()
admin = client.sf.getAdminService()
cont = client.sf.getContainerService()
ds = DatasetI()
ds.setName(rstring('test1184-ds-%s' % (uuid)))
for i in range(1,2001):
img = ImageI()
img.setName(rstring('img1184-%s' % (uuid)))
img.setAcquisitionDate(rtime(time.time()))
# Saving in one go
#dil = DatasetImageLinkI()
#dil.setParent(ds)
#dil.setChild(img)
#update.saveObject(dil)
ds.linkImage(img)
ds = update.saveAndReturnObject(ds)
c = cont.getCollectionCount(ds.__class__.__name__, ("imageLinks"), [ds.id.val], None)
assert c[ds.id.val] == 2000
page = 1
p = omero.sys.Parameters()
p.map = {}
p.map["eid"] = rlong(admin.getEventContext().userId)
p.map["oid"] = rlong(ds.id.val)
if page is not None:
f = omero.sys.Filter()
f.limit = rint(24)
f.offset = rint((int(page)-1)*24)
p.theFilter = f
sql = "select im from Image im join fetch im.details.owner join fetch im.details.group " \
"left outer join fetch im.datasetLinks dil left outer join fetch dil.parent d " \
"where d.id = :oid and im.details.owner.id=:eid order by im.id asc"
start = time.time()
res = query.findAllByQuery(sql,p)
assert 24 == len(res)
end = time.time()
elapsed = end - start
assert elapsed < 3.0,\
"Expected the test to complete in < 3 seconds, took: %f" % elapsed
def test1157(self):
uuid = self.root.sf.getAdminService().getEventContext().sessionUuid
share = self.root.sf.getShareService()
### create two users in one group
client_share1, user1 = self.new_client_and_user()
client_share2, user2 = self.new_client_and_user()
## login as user1
share1 = client_share1.sf.getShareService()
update1 = client_share1.sf.getUpdateService()
# create image
img = ImageI()
img.setName(rstring('test1154-img-%s' % (uuid)))
img.setAcquisitionDate(rtime(0))
img = update1.saveAndReturnObject(img)
img.unload()
# create share
description = "my description"
timeout = None
objects = [img]
experimenters = [user2]
guests = []
enabled = True
sid = share1.createShare(description, timeout, objects, experimenters,
guests, enabled)
self.assert_(len(share1.getContents(sid)) == 1)
# add comment by the owner
share.addComment(sid, 'test comment by the owner %s' % (uuid))
## login as user2
share2 = client_share2.sf.getShareService()
query2 = client_share2.sf.getQueryService()
# add comment by the member
share2.addComment(sid, 'test comment by the member %s' % (uuid))
# Don't have to activate share2
#get comments
# by user1
c1 = len(share.getComments(sid))
self.assertEquals(2, c1)
# by user2
c2 = len(share2.getComments(sid))
self.assertEquals(2, c2)
def test1154(self):
uuid = self.root.sf.getAdminService().getEventContext().sessionUuid
### create two users in one group
client_share1, user1 = self.new_client_and_user()
client_share2, user2 = self.new_client_and_user()
## login as user1
share1 = client_share1.sf.getShareService()
update1 = client_share1.sf.getUpdateService()
# create image
img = ImageI()
img.setName(rstring('test1154-img-%s' % (uuid)))
img.setAcquisitionDate(rtime(0))
img = update1.saveAndReturnObject(img)
img.unload()
# create share
description = "my description"
timeout = None
objects = [img]
experimenters = [user2]
guests = []
enabled = True
sid = share1.createShare(description, timeout, objects, experimenters,
guests, enabled)
self.assertEquals(1, len(share1.getContents(sid)))
## login as user2
share2 = client_share2.sf.getShareService()
query2 = client_share2.sf.getQueryService()
content = share2.getContents(sid)
self.assertEquals(1, len(share2.getContents(sid)))
# get shared image when share is activated
share2.activate(sid)
p = omero.sys.Parameters()
p.map = {}
p.map["ids"] = rlist([rlong(img.id.val)])
sql = "select im from Image im where im.id in (:ids) order by im.name"
res = query2.findAllByQuery(sql, p)
self.assertEquals(1, len(res))
for e in res:
self.assert_(e.id.val == img.id.val)
def test1154(self):
uuid = self.root.sf.getAdminService().getEventContext().sessionUuid
### create two users in one group
client_share1, user1 = self.new_client_and_user()
client_share2, user2 = self.new_client_and_user()
## login as user1
share1 = client_share1.sf.getShareService()
update1 = client_share1.sf.getUpdateService()
# create image
img = ImageI()
img.setName(rstring('test1154-img-%s' % (uuid)))
img.setAcquisitionDate(rtime(0))
img = update1.saveAndReturnObject(img)
img.unload()
# create share
description = "my description"
timeout = None
objects = [img]
experimenters = [user2]
guests = []
enabled = True
sid = share1.createShare(description, timeout, objects,experimenters, guests, enabled)
self.assertEquals(1,len(share1.getContents(sid)))
## login as user2
share2 = client_share2.sf.getShareService()
query2 = client_share2.sf.getQueryService()
content = share2.getContents(sid)
self.assertEquals(1,len(share2.getContents(sid)))
# get shared image when share is activated
share2.activate(sid)
p = omero.sys.Parameters()
p.map = {}
p.map["ids"] = rlist([rlong(img.id.val)])
sql = "select im from Image im where im.id in (:ids) order by im.name"
res = query2.findAllByQuery(sql, p)
self.assertEquals(1,len(res))
for e in res:
self.assert_(e.id.val == img.id.val)
def test2327(self):
### create two users in two groups
client_share1, user1 = self.new_client_and_user()
client_share2, user2 = self.new_client_and_user()
## login as user1
share1 = client_share1.sf.getShareService()
update1 = client_share1.sf.getUpdateService()
# create image
img = ImageI()
img.setName(rstring('test2327'))
img.setAcquisitionDate(rtime(0))
img = update1.saveAndReturnObject(img)
img.unload()
# create share
description = "my description"
timeout = None
objects = [img]
experimenters = [user2]
guests = []
enabled = True
sid = share1.createShare(description, timeout, objects, experimenters, guests, enabled)
self.assert_(len(share1.getContents(sid)) == 1)
# add comment by the owner
share1.addComment(sid, 'test comment by the owner %s' % user1.id.val)
## login as user2
share2 = client_share2.sf.getShareService()
query2 = client_share2.sf.getQueryService()
l = share2.getMemberShares(False)
self.assertEquals(1, len(l))
# add comment by the member
share2.addComment(sid, 'test comment by the member %s' % (user2.id.val))
# Don't have to activate share2
#get comments
# by user1
c1 = len(share1.getComments(sid))
self.assertEquals(2, c1)
# by user2
c2 = len(share2.getComments(sid))
self.assertEquals(2, c2)
def test1157(self):
uuid = self.root.sf.getAdminService().getEventContext().sessionUuid
share = self.root.sf.getShareService()
### create two users in one group
client_share1, user1 = self.new_client_and_user()
client_share2, user2 = self.new_client_and_user()
## login as user1
share1 = client_share1.sf.getShareService()
update1 = client_share1.sf.getUpdateService()
# create image
img = ImageI()
img.setName(rstring('test1154-img-%s' % (uuid)))
img.setAcquisitionDate(rtime(0))
img = update1.saveAndReturnObject(img)
img.unload()
# create share
description = "my description"
timeout = None
objects = [img]
experimenters = [user2]
guests = []
enabled = True
sid = share1.createShare(description, timeout, objects,experimenters, guests, enabled)
self.assert_(len(share1.getContents(sid)) == 1)
# add comment by the owner
share.addComment(sid, 'test comment by the owner %s' % (uuid))
## login as user2
share2 = client_share2.sf.getShareService()
query2 = client_share2.sf.getQueryService()
# add comment by the member
share2.addComment(sid, 'test comment by the member %s' % (uuid))
# Don't have to activate share2
#get comments
# by user1
c1 = len(share.getComments(sid))
self.assertEquals(2,c1)
# by user2
c2 = len(share2.getComments(sid))
self.assertEquals(2,c2)
def test2327(self):
# create two users in two groups
client_share1, user1 = self.new_client_and_user()
client_share2, user2 = self.new_client_and_user()
# login as user1
share1 = client_share1.sf.getShareService()
update1 = client_share1.sf.getUpdateService()
# create image
img = ImageI()
img.setName(rstring("test2327"))
img.setAcquisitionDate(rtime(0))
img = update1.saveAndReturnObject(img)
img.unload()
# create share
description = "my description"
timeout = None
objects = [img]
experimenters = [user2]
guests = []
enabled = True
sid = share1.createShare(description, timeout, objects, experimenters, guests, enabled)
assert len(share1.getContents(sid)) == 1
# add comment by the owner
share1.addComment(sid, "test comment by the owner %s" % user1.id.val)
# login as user2
share2 = client_share2.sf.getShareService()
l = share2.getMemberShares(False)
assert 1 == len(l)
# add comment by the member
share2.addComment(sid, "test comment by the member %s" % user2.id.val)
# get comments
# by user1
c1 = len(share1.getComments(sid))
assert 2 == c1
# by user2
c2 = len(share2.getComments(sid))
assert 2 == c2
def test1163(self):
uuid = self.uuid()
new_gr1 = self.new_group(perms="rw----")
client_share1, new_exp_obj = self.new_client_and_user(new_gr1)
update1 = client_share1.sf.getUpdateService()
search1 = client_share1.sf.createSearchService()
# create image and index
img = ImageI()
img.setName(rstring('test1154-img-%s' % (uuid)))
img.setAcquisitionDate(rtime(0))
img = update1.saveAndReturnObject(img)
img.unload()
self.index(img)
# search
search1.onlyType('Image')
search1.addOrderByAsc("name")
search1.byFullText("test*")
self.assertTrue(search1.hasNext())
res = search1.results()
self.assertEquals(1, len(res))
def test1163(self):
uuid = self.uuid()
new_gr1 = self.new_group(perms="rw----")
client_share1, new_exp_obj = self.new_client_and_user(new_gr1)
update1 = client_share1.sf.getUpdateService()
search1 = client_share1.sf.createSearchService()
# create image and index
img = ImageI()
img.setName(rstring('test1154-img-%s' % (uuid)))
img.setAcquisitionDate(rtime(0))
img = update1.saveAndReturnObject(img)
img.unload()
self.index(img)
# search
search1.onlyType('Image')
search1.addOrderByAsc("name")
search1.byFullText("test*")
assert search1.hasNext()
res = search1.results()
assert 1 == len(res)
def test8118(self):
uuid = self.root.sf.getAdminService().getEventContext().sessionUuid
share_serv = self.root.sf.getShareService()
update_serv = self.root.sf.getUpdateService()
# create user
user1 = self.new_user()
# create image
img = ImageI()
img.setName(rstring('test8118-img-%s' % (uuid)))
img.setAcquisitionDate(rtime(0))
img = update_serv.saveAndReturnObject(img)
img.unload()
# create share
description = "my description"
timeout = None
objects = [img]
experimenters = [user1]
guests = []
enabled = True
sid = share_serv.createShare(description, timeout, objects,
experimenters, guests, enabled)
suuid = share_serv.getShare(sid).uuid
self.assertEquals(1, len(share_serv.getContents(sid)))
# join share
user1_client = omero.client()
try:
user1_client.createSession(suuid, suuid)
user1_share = user1_client.sf.getShareService()
user1_share.activate(sid)
self.assertEquals(1, len(user1_share.getContents(sid)))
finally:
user1_client.__del__()
def test8118(self):
uuid = self.root.sf.getAdminService().getEventContext().sessionUuid
share_serv = self.root.sf.getShareService()
update_serv = self.root.sf.getUpdateService()
# create user
user1 = self.new_user()
# create image
img = ImageI()
img.setName(rstring('test8118-img-%s' % (uuid)))
img.setAcquisitionDate(rtime(0))
img = update_serv.saveAndReturnObject(img)
img.unload()
# create share
description = "my description"
timeout = None
objects = [img]
experimenters = [user1]
guests = []
enabled = True
sid = share_serv.createShare(description, timeout, objects,experimenters, guests, enabled)
suuid = share_serv.getShare(sid).uuid
self.assertEquals(1,len(share_serv.getContents(sid)))
# join share
user1_client = omero.client()
try:
user1_client.createSession(suuid,suuid)
user1_share = user1_client.sf.getShareService()
user1_share.activate(sid)
self.assertEquals(1, len(user1_share.getContents(sid)))
finally:
user1_client.__del__()
def test1172(self):
uuid = self.root.sf.getAdminService().getEventContext().sessionUuid
share = self.root.sf.getShareService()
query = self.root.sf.getQueryService()
update = self.root.sf.getUpdateService()
### create user
client_share1, user1 = self.new_client_and_user()
#create dataset with image
#dataset with image
ds = omero.model.DatasetI()
ds.setName(rstring("dataset-%s" % (uuid)))
ds = update.saveAndReturnObject(ds)
ds.unload()
# create image
img = ImageI()
img.setName(rstring('test-img in dataset-%s' % (uuid)))
img.setAcquisitionDate(rtime(0))
img = update.saveAndReturnObject(img)
img.unload()
dil = DatasetImageLinkI()
dil.setParent(ds)
dil.setChild(img)
dil = update.saveAndReturnObject(dil)
dil.unload()
# create share by root
items = list()
ms = list()
p = omero.sys.Parameters()
p.map = {}
p.map["oid"] = ds.id
sql = "select ds from Dataset ds join fetch ds.details.owner join fetch ds.details.group " \
"left outer join fetch ds.imageLinks dil left outer join fetch dil.child i " \
"where ds.id=:oid"
items.extend(query.findAllByQuery(sql, p))
self.assertEquals(1, len(items))
#members
p.map["eid"] = rlong(user1.id.val)
sql = "select e from Experimenter e where e.id =:eid order by e.omeName"
ms = query.findAllByQuery(sql, p)
sid = share.createShare(("test-share-%s" % uuid),
rtime(long(time.time() * 1000 + 86400)), items,
ms, [], True)
# USER RETRIEVAL
## login as user1
share1 = client_share1.sf.getShareService()
query1 = client_share1.sf.getQueryService()
cntar1 = client_share1.sf.getContainerService()
content = share1.getContents(sid)
# Content now contains just the dataset with nothing loaded
self.assertEquals(1, len(content))
# get shared dataset and image when share is activated
share1.activate(sid)
#retrieve dataset
p = omero.sys.Parameters()
p.map = {}
p.map["ids"] = rlist([ds.id])
sql = "select ds from Dataset ds join fetch ds.details.owner join fetch ds.details.group " \
"left outer join fetch ds.imageLinks dil left outer join fetch dil.child i " \
"where ds.id in (:ids) order by ds.name"
try:
res1 = query1.findAllByQuery(sql, p)
self.fail("This should throw an exception")
except:
pass
#
# Now we add all the other elements to the share to prevent
# the security violation
#
# Not working imgs = cntar.getImages("Dataset",[ds.id.val], None)
img = query.findByQuery(
"select i from Image i join fetch i.datasetLinks dil join dil.parent d where d.id = %s "
% ds.id.val, None)
self.assert_(img)
share.addObject(sid, img)
share.addObjects(sid, img.copyDatasetLinks())
self.assertEquals(3, len(share.getContents(sid)))
#
# And try again to load them
#
share1.activate(sid)
res1 = query1.findAllByQuery(sql, p)
self.assert_(len(res1) == 1)
for e in res1:
self.assert_(e.id.val == ds.id.val)
# retrieve only image
p = omero.sys.Parameters()
p.map = {}
p.map["oid"] = rlong(img.id)
sql = "select im from Image im " \
"where im.id=:oid order by im.name"
res2 = query1.findByQuery(sql, p)
self.assert_(res2.id.val == img.id.val)
def testFindAnnotations(self):
ipojo = self.client.sf.getContainerService()
i = ImageI()
i.setName(rstring("name"))
i.setAcquisitionDate(rtime(0))
i = ipojo.createDataObject(i, None)
def testFindAndCountAnnotationsForSharedData(self):
uuid = self.root.sf.getAdminService().getEventContext().sessionUuid
query = self.root.sf.getQueryService()
update = self.root.sf.getUpdateService()
admin = self.root.sf.getAdminService()
ipojo = self.root.sf.getContainerService()
### create new users
#group1
new_gr1 = ExperimenterGroupI()
new_gr1.name = rstring("group1_%s" % uuid)
gid = admin.createGroup(new_gr1)
#new user1
new_exp = ExperimenterI()
new_exp.omeName = rstring("user1_%s" % uuid)
new_exp.firstName = rstring("New")
new_exp.lastName = rstring("Test")
defaultGroup = admin.getGroup(gid)
listOfGroups = list()
listOfGroups.append(admin.lookupGroup("user"))
eid = admin.createExperimenterWithPassword(new_exp, rstring("ome"),
defaultGroup, listOfGroups)
#new user2
new_exp2 = ExperimenterI()
new_exp2.omeName = rstring("user2_%s" % uuid)
new_exp2.firstName = rstring("New2")
new_exp2.lastName = rstring("Test2")
defaultGroup = admin.getGroup(gid)
listOfGroups = list()
listOfGroups.append(admin.lookupGroup("user"))
eid2 = admin.createExperimenterWithPassword(new_exp2, rstring("ome"),
defaultGroup, listOfGroups)
## get users
user1 = admin.getExperimenter(eid)
user2 = admin.getExperimenter(eid2)
## login as user1
cl1 = self.new_client(user=user1, password="******")
update1 = cl1.sf.getUpdateService()
ipojo1 = cl1.sf.getContainerService()
# create image
img = ImageI()
img.setName(rstring('test1154-img-%s' % (uuid)))
img.setAcquisitionDate(rtime(0))
# default permission 'rw----':
img = update1.saveAndReturnObject(img)
img.unload()
ann1 = CommentAnnotationI()
ann1.textValue = rstring("user comment - %s" % uuid)
l_ann1 = ImageAnnotationLinkI()
l_ann1.setParent(img)
l_ann1.setChild(ann1)
update1.saveObject(l_ann1)
#user retrives the annotations for image
coll_count = ipojo1.getCollectionCount(
"Image", "ome.model.containers.Image_annotationLinks",
[img.id.val], None)
self.assertEquals(1, coll_count.get(img.id.val, []))
#self.assertEquals(1, len(ipojo1.findAnnotations("Image", [img.id.val], None, None).get(img.id.val, [])))
## login as user2
cl2 = self.new_client(user=user2, password="******")
update2 = cl1.sf.getUpdateService()
ann = CommentAnnotationI()
ann.textValue = rstring("user2 comment - %s" % uuid)
l_ann = ImageAnnotationLinkI()
l_ann.setParent(img)
l_ann.setChild(ann)
update2.saveObject(l_ann)
#do they see the same vals?
#print ipojo1.getCollectionCount("Image", "ome.model.containers.Image_annotationLinks", [img.id.val], None)
#print ipojo.getCollectionCount("Image", "ome.model.containers.Image_annotationLinks", [img.id.val], None)
#print len(ipojo1.findAnnotations("Image", [img.id.val], None, None).get(img.id.val, []))
#print len(ipojo.findAnnotations("Image", [img.id.val], None, None).get(img.id.val, []))
coll_count = ipojo1.getCollectionCount(
"Image", "ome.model.containers.Image_annotationLinks",
[img.id.val], None)
self.assertEquals(2, coll_count.get(img.id.val, []))
#anns = ipojo1.findAnnotations("Image", [img.id.val], None, None).get(img.id.val, [])
#self.assertEquals(2, len(anns))
#self.assert_(anns[0].details.permissions == 'rw----')
#self.assert_(anns[1].details.permissions == 'rw----')
cl1.sf.closeOnDestroy()
cl2.sf.closeOnDestroy()
def testFindAnnotations(self):
ipojo = self.client.sf.getContainerService()
i = ImageI()
i.setName(rstring("name"))
i.setAcquisitionDate(rtime(0))
i = ipojo.createDataObject(i,None)
def test1172(self):
uuid = self.root.sf.getAdminService().getEventContext().sessionUuid
share = self.root.sf.getShareService()
query = self.root.sf.getQueryService()
update = self.root.sf.getUpdateService()
### create user
client_share1, user1 = self.new_client_and_user()
#create dataset with image
#dataset with image
ds = omero.model.DatasetI()
ds.setName(rstring("dataset-%s" % (uuid)))
ds = update.saveAndReturnObject(ds)
ds.unload()
# create image
img = ImageI()
img.setName(rstring('test-img in dataset-%s' % (uuid)))
img.setAcquisitionDate(rtime(0))
img = update.saveAndReturnObject(img)
img.unload()
dil = DatasetImageLinkI()
dil.setParent(ds)
dil.setChild(img)
dil = update.saveAndReturnObject(dil)
dil.unload()
# create share by root
items = list()
ms = list()
p = omero.sys.Parameters()
p.map = {}
p.map["oid"] = ds.id
sql = "select ds from Dataset ds join fetch ds.details.owner join fetch ds.details.group " \
"left outer join fetch ds.imageLinks dil left outer join fetch dil.child i " \
"where ds.id=:oid"
items.extend(query.findAllByQuery(sql, p))
self.assertEquals(1, len(items))
#members
p.map["eid"] = rlong(user1.id.val)
sql = "select e from Experimenter e where e.id =:eid order by e.omeName"
ms = query.findAllByQuery(sql, p)
sid = share.createShare(("test-share-%s" % uuid), rtime(long(time.time()*1000 + 86400)) , items, ms, [], True)
# USER RETRIEVAL
## login as user1
share1 = client_share1.sf.getShareService()
query1 = client_share1.sf.getQueryService()
cntar1 = client_share1.sf.getContainerService()
content = share1.getContents(sid)
# Content now contains just the dataset with nothing loaded
self.assertEquals(1, len(content))
# get shared dataset and image when share is activated
share1.activate(sid)
#retrieve dataset
p = omero.sys.Parameters()
p.map = {}
p.map["ids"] = rlist([ds.id])
sql = "select ds from Dataset ds join fetch ds.details.owner join fetch ds.details.group " \
"left outer join fetch ds.imageLinks dil left outer join fetch dil.child i " \
"where ds.id in (:ids) order by ds.name"
try:
res1 = query1.findAllByQuery(sql, p)
self.fail("This should throw an exception")
except:
pass
#
# Now we add all the other elements to the share to prevent
# the security violation
#
# Not working imgs = cntar.getImages("Dataset",[ds.id.val], None)
img = query.findByQuery("select i from Image i join fetch i.datasetLinks dil join dil.parent d where d.id = %s " % ds.id.val, None)
self.assert_(img)
share.addObject(sid, img)
share.addObjects(sid, img.copyDatasetLinks())
self.assertEquals(3, len(share.getContents(sid)))
#
# And try again to load them
#
share1.activate(sid)
res1 = query1.findAllByQuery(sql, p)
self.assert_(len(res1) == 1)
for e in res1:
self.assert_(e.id.val == ds.id.val)
# retrieve only image
p = omero.sys.Parameters()
p.map = {}
p.map["oid"] = rlong(img.id)
sql = "select im from Image im " \
"where im.id=:oid order by im.name"
res2 = query1.findByQuery(sql, p)
self.assert_(res2.id.val == img.id.val)
def testFindAndCountAnnotationsForSharedData(self):
uuid = self.root.sf.getAdminService().getEventContext().sessionUuid
query = self.root.sf.getQueryService()
update = self.root.sf.getUpdateService()
admin = self.root.sf.getAdminService()
ipojo = self.root.sf.getContainerService()
### create new users
#group1
new_gr1 = ExperimenterGroupI()
new_gr1.name = rstring("group1_%s" % uuid)
gid = admin.createGroup(new_gr1)
#new user1
new_exp = ExperimenterI()
new_exp.omeName = rstring("user1_%s" % uuid)
new_exp.firstName = rstring("New")
new_exp.lastName = rstring("Test")
defaultGroup = admin.getGroup(gid)
listOfGroups = list()
listOfGroups.append(admin.lookupGroup("user"))
eid = admin.createExperimenterWithPassword(new_exp, rstring("ome"), defaultGroup, listOfGroups)
#new user2
new_exp2 = ExperimenterI()
new_exp2.omeName = rstring("user2_%s" % uuid)
new_exp2.firstName = rstring("New2")
new_exp2.lastName = rstring("Test2")
defaultGroup = admin.getGroup(gid)
listOfGroups = list()
listOfGroups.append(admin.lookupGroup("user"))
eid2 = admin.createExperimenterWithPassword(new_exp2, rstring("ome"), defaultGroup, listOfGroups)
## get users
user1 = admin.getExperimenter(eid)
user2 = admin.getExperimenter(eid2)
## login as user1
cl1 = self.new_client(user=user1, password="******")
update1 = cl1.sf.getUpdateService()
ipojo1 = cl1.sf.getContainerService()
# create image
img = ImageI()
img.setName(rstring('test1154-img-%s' % (uuid)))
img.setAcquisitionDate(rtime(0))
# default permission 'rw----':
img = update1.saveAndReturnObject(img)
img.unload()
ann1 = CommentAnnotationI()
ann1.textValue = rstring("user comment - %s" % uuid)
l_ann1 = ImageAnnotationLinkI()
l_ann1.setParent(img)
l_ann1.setChild(ann1)
update1.saveObject(l_ann1)
#user retrives the annotations for image
coll_count = ipojo1.getCollectionCount("Image", "ome.model.containers.Image_annotationLinks", [img.id.val], None)
self.assertEquals(1, coll_count.get(img.id.val, []))
#self.assertEquals(1, len(ipojo1.findAnnotations("Image", [img.id.val], None, None).get(img.id.val, [])))
## login as user2
cl2 = self.new_client(user=user2, password="******")
update2 = cl1.sf.getUpdateService()
ann = CommentAnnotationI()
ann.textValue = rstring("user2 comment - %s" % uuid)
l_ann = ImageAnnotationLinkI()
l_ann.setParent(img)
l_ann.setChild(ann)
update2.saveObject(l_ann)
#do they see the same vals?
#print ipojo1.getCollectionCount("Image", "ome.model.containers.Image_annotationLinks", [img.id.val], None)
#print ipojo.getCollectionCount("Image", "ome.model.containers.Image_annotationLinks", [img.id.val], None)
#print len(ipojo1.findAnnotations("Image", [img.id.val], None, None).get(img.id.val, []))
#print len(ipojo.findAnnotations("Image", [img.id.val], None, None).get(img.id.val, []))
coll_count = ipojo1.getCollectionCount("Image", "ome.model.containers.Image_annotationLinks", [img.id.val], None)
self.assertEquals(2, coll_count.get(img.id.val, []))
#anns = ipojo1.findAnnotations("Image", [img.id.val], None, None).get(img.id.val, [])
#self.assertEquals(2, len(anns))
#self.assert_(anns[0].details.permissions == 'rw----')
#self.assert_(anns[1].details.permissions == 'rw----')
cl1.sf.closeOnDestroy()
cl2.sf.closeOnDestroy()
