Open Microscopy Environment

Hi Josh,

I had a try of your python code but was not successfull (my code attached below). I cannot make the setSecurityContext to work either with

Code: Select all

self.sf=conn.getSession()

or

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self.sf=conn. secSecurityContext

is not a known method in all case. I went through the API doc for BlitzGateway and omero.model.session and it indeed appears nowhere. I tried to find my way in test_permission.py within the source code that appear to do what I tried to do but the test class definition through Pytest etc. are likely beyond my knowledge of python. Anyway, it was just to help and test your code. On my side, the issue in matlab is solved.

Cheers

Jacques

Code: Select all

from omero.gateway import *
from omero.model import *
class RootConn:
    def __init__(self):
      conn = BlitzGateway('root', '**********' host='host', port=4064)
      conn.connect()
      self.sf=conn.getSession()

class MyClass:
    def __init__(self):
      conn = BlitzGateway('J', '*****************', host='host', port=4064)
      connected = conn.connect()
      self.sf=conn
      self.root=RootConn()

    def testUserGroupLinkage(self):
            admin = self.sf.getAdminService()
            update = self.sf.getUpdateService()
            ugid = admin.getSecurityRoles().userGroupId
            ogid = admin.getEventContext().groupId

            # (1) We start off by assuming ogid == 3 as in your example
            # -------------------------------------------------------------------

            # (2) Then create a file annotation in the user's current group
            # -------------------------------------------------------------------
            fa = FileAnnotationI()
            fa = update.saveAndReturnObject(fa)
            assert fa.details.group.id.val == ogid

            # (3) Then we create a dataset in the "user" group (id=1)
            # -------------------------------------------------------------------
            ds = DatasetI()
            ds.setName(rstring("testUserGroupLinkage"))
            ds = update.saveAndReturnObject(ds)
            assert ds.details.group.id.val == ogid
            self.root.sf.setSecurityContext(ExperimenterGroupI(ogid, False))
            self.root.sf.getAdminService().moveToCommonSpace([ds])

            # (4) Now we link the two together.
            # -------------------------------------------------------------------
            dal = DatasetAnnotationLinkI()
            dal.parent = ds.proxy()
            dal.child = fa.proxy()
            dal = update.saveAndReturnObject(dal)

c = MyClass()
c.testUserGroupLinkage()

Hi Jacques,

in my code, `self` was the ITest class. It has fields:

• self.client of type omero.client.BaseClient and
• self.sf of type omero.api.ServiceFactoryPrx

BaseClient has the field self.sf as well.

Your `conn` object is of type omero.gateway.BlitzGateway and has a field `self.c` of type BaseClient. In short, to get to the `sf` field, you need:

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self.conn.c.sf


Hope that helps.
~Josh.

Great ! thank you.
With the suggested correction, the python code run smoothly. It does not reproduce the matlab bug.

Cheers

Jacques